GSE	SRR	GSM	SRP	sample	replicate	experiment_type	title	source_name	characteristics	growth_protocol	treatment_protocol	extract_protocol	molecule	library_source	library_selection	library_strategy	spots	size_MB	submission_date	status	last_update_date	taxid	platform_id	instrument_model	description	data_processing	data_row_count	relation	type	channel_count	contact_address	contact_city	contact_country	contact_email	contact_institute	contact_name	contact_state	contact_zip.postal_code	ReleaseDate	LoadDate	bases	spots_with_mates	avgLength	AssemblyName	download_path	Experiment	LibraryName	LibraryStrategy	LibrarySelection	LibrarySource	LibraryLayout	InsertSize	InsertDev	Platform	Model	SRAStudy	BioProject	Study_Pubmed_id	ProjectID	Sample	BioSample	SampleType	TaxID	ScientificName	g1k_pop_code	source	g1k_analysis_group	Subject_ID	Sex	Disease	Tumor	Affection_Status	Analyte_Type	Histological_Type	Body_Site	CenterName	Submission	dbgap_study_accession	Consent	SRRHash	ReadHash
GSE84073	SRR5660444	GSM2653847	SRP077971	CC1_O	CC1_O_1	RNA-seq	CC1-Organoid_1 [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p6; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	13351595	290	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 11 and 12 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206759; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896634	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:22	543199860	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5942924	SRX2896634	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264091	SAMN07206759	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7218D5E5C92715DB99FC0459FE080224	D832EB575DFA863894CA5CB31A359B19
GSE84073	SRR5660445	GSM2653848	SRP077971	CC1_O	CC1_O_2	RNA-seq	CC1-Organoid_2 [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p6; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	13326623	270	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 11 and 12 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206760; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896633	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:23	820252836	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5942766	SRX2896633	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264090	SAMN07206760	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	3EDA18150A0EE3C8A84B303B06C60648	5A945C68EEDC65EB2CE115EBF11C015A
GSE84073	SRR5660446	GSM2653849	SRP077971	CC1_O	CC1_O_a	RNA-seq	CC1-Organoid_a [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p7; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	10142606	220	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 15 and 16 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206800; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896638	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	576543664	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660431	SRX2896638	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264096	SAMN07206800	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	B34A5EC92DCA739FC92365ED41B818FF	CC39F843F7736B9A978936C3D81801F1
GSE84073	SRR5660447	GSM2653850	SRP077971	CC1_O	CC1_O_b	RNA-seq	CC1-Organoid_b [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p7; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	9567559	207	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 15 and 16 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206801; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896637	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	564999753	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660430	SRX2896637	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264095	SAMN07206801	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	DF3A1911AB5808CC7E9C290D4CAB8A4E	DAB4400223B2BB069772EA0D0D252402
GSE84073	SRR5660448	GSM2653851	SRP077971	CC1_O	CC1_O_c	RNA-seq	CC1-Organoid_c [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p6; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	10306098	223	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 21 and 22 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206777; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896644	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	617391095	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660437	SRX2896644	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264102	SAMN07206777	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D4005E3E9FB14E00710C5D1EDF082784	D56AC9DA2FCCF3C41EB11D8B5A6C12E5
GSE84073	SRR5942766	GSM2653829	SRP077971	CC1_T	CC1_T_1	RNA-seq	CC1-Tissue_1 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	16541291	343	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 61	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515146; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101632	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:29	5374745100	17915817	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943140	SRX3101632	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437575	SAMN07515146	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E60EA439081748C70A3E30588A56C79E	F72FD854B7ABEB04E698746DD5777551
GSE84073	SRR5942924	GSM2653830	SRP077971	CC1_T	CC1_T_2	RNA-seq	CC1-Tissue_2 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	10948502	250	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 61	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515146; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101632	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:30	5357681400	17858938	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943139	SRX3101632	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437575	SAMN07515146	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7103243B477925030AA0F673E8D2F69F	33763B34F8DE745A2E6491A1D0D29E51
GSE84073	SRR5660449	GSM2653852	SRP077971	CC2_O	CC2_O	RNA-seq	CC2-Organoid [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p7; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	5649200	113	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 21 and 22 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206778; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896643	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	571250835	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660436	SRX2896643	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264103	SAMN07206778	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A48DF6FC07B54D134B72568DE8004166	8CD72290ADBA8F46DB24C5A508E5AD9B
GSE84073	SRR5660428	GSM2653831	SRP077971	CC2_T	CC2_T	RNA-seq	CC2-Tissue [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	8574166	172	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 1 and 2 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206769; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896623	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	786047122	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660417	SRX2896623	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264082	SAMN07206769	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A9F4C107264D6224C8218C369BF8B2BA	F5B5AEB38322DBC4DDEE7A7C5F741B01
GSE84073	SRR5660450	GSM2653853	SRP077971	CC3_O	CC3_O	RNA-seq	CC3-Organoid [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p3; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	6929088	139	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 24 and 25 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206774; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896647	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	627127989	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660440	SRX2896647	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264107	SAMN07206774	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7D5E6627ED0D9E615BE17FB37D3CD20A	F16B767AC1380FB94FAAA4064A6C0CCE
GSE84073	SRR5660429	GSM2653832	SRP077971	CC3_T	CC3_T	RNA-seq	CC3-Tissue [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	8855171	178	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 10	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206761; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896632	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	444298601	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660425	SRX2896632	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264089	SAMN07206761	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	2C49CAC21A44168CE3789085E7F5AF74	9775FB62A5343F372E17F711DE945A7C
GSE84073	SRR5660439	GSM2653842	SRP077971	CHC1_O	CHC1_O_1	RNA-seq	CHC1-Organoid_1 [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p13; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	10706438	232	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 34	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206753; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896656	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	282826518	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660449	SRX2896656	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264114	SAMN07206753	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	C946F56DBD9685B6642EB0C0ACA618EE	D588BE78D0410DF17C4C9CF7975E4EC7
GSE84073	SRR5660440	GSM2653843	SRP077971	CHC1_O	CHC1_O_2	RNA-seq	CHC1-Organoid_2 [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p13; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	12550575	253	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 35	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206752; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896657	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	347095330	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660450	SRX2896657	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264115	SAMN07206752	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	43BDD7F50BF9CE7C9EA6B221E1DCACBA	BABEEE53839CA44EB7F8FB2432FCF179
GSE84073	SRR5660441	GSM2653844	SRP077971	CHC1_O	CHC1_O_a	RNA-seq	CHC1-Organoid_a [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p8; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	11214888	243	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 4	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206767; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896625	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	427679824	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660419	SRX2896625	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264084	SAMN07206767	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E12E495E6519ECD571C99A3096446DE8	EC93EC28D1E10F2358DB33F173235A03
GSE84073	SRR5660442	GSM2653845	SRP077971	CHC1_O	CHC1_O_b	RNA-seq	CHC1-Organoid_b [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p7; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	9043168	196	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 7	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206764; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896628	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	443303308	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660422	SRX2896628	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264086	SAMN07206764	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	5AE0AF392421294AD0F8F20A55363BE1	5E6CAC14E1599D5E973E72136EF363CB
GSE84073	SRR5942928	GSM2653826	SRP077971	CHC1_T	CHC1_T_1	RNA-seq	CHC1-Tissue_1 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	14708628	302	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 60	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515147; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101631	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:29	4934081400	16446938	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943138	SRX3101631	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437574	SAMN07515147	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	07DDF5E2442E79DC7E8AB08B42BF8578	28C25D76F230EEF0A1D32CD2AF50BC85
GSE84073	SRR5942765	GSM2653827	SRP077971	CHC1_T	CHC1_T_2	RNA-seq	CHC1-Tissue_2 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	13188095	296	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 61	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515146; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101632	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	5274908100	17583027	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943141	SRX3101632	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437575	SAMN07515146	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A41F35E65FB2E45260A30BBAB2A3AD4C	C749A523AA5E3B425358ABE7C6D493AC
GSE84073	SRR5660443	GSM2653846	SRP077971	CHC2_O	CHC2_O	RNA-seq	CHC2-Organoid [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p5; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	11496579	231	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 1 and 2 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206770; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896622	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	729599237	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660416	SRX2896622	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264081	SAMN07206770	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	88DC0FCE7EAF96BD9FDA98134200A3D3	AA6D6C0FE38AA7C8EDCE7FCF9731338B
GSE84073	SRR5660425	GSM2653828	SRP077971	CHC2_T	CHC2_T	RNA-seq	CHC2-Tissue [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	8891964	179	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 61	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515146; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101632	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	5261076600	17536922	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943142	SRX3101632	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437575	SAMN07515146	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	B080AF0A38A8153B97C047954B3A3C3F	8AD59980FB26831B6613DD3A0B94397E
GSE84073	SRR5660436	GSM2653839	SRP077971	HCC1_O	HCC1_O_1	RNA-seq	HCC1-Organoid_1 [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p4; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	11425109	248	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 23	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206776; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896645	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	402987469	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660438	SRX2896645	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264104	SAMN07206776	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	AA3EA9A02C896803F1F661ED3AC21A99	E5D1FFD0F7A84EEEF328AAE18D81DF67
GSE84073	SRR5660437	GSM2653840	SRP077971	HCC1_O	HCC1_O_2	RNA-seq	HCC1-Organoid_2 [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p4; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	12350321	250	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 28	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206771; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896650	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	575167235	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660443	SRX2896650	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264109	SAMN07206771	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A083667E7AD04362B74DD52675C61BB1	F3C9E126ED643C0B6D09A201632F6D1D
GSE84073	SRR5942552	GSM2653823	SRP077971	HCC1_T	HCC1_T_1	RNA-seq	HCC1-Tissue_1 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	14489014	298	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 60	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515147; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101631	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	5027067000	16756890	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943136	SRX3101631	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437574	SAMN07515147	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	3E193FF0F272E2A1FA04F175B8094007	F5877488D51162DE988ABC09173F923B
GSE84073	SRR5942927	GSM2653824	SRP077971	HCC1_T	HCC1_T_2	RNA-seq	HCC1-Tissue_2 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	12371238	278	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 60	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515147; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101631	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	5026889400	16756298	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943135	SRX3101631	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437574	SAMN07515147	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BEC138D3ADC697747BB23BF7EA8292BC	FF4A44FE5E1BC220627CB994D7DBC3E2
GSE84073	SRR5660438	GSM2653841	SRP077971	HCC3_O	HCC3_O	RNA-seq	HCC3-Organoid [RNA-Seq]	Human liver tumoroid	cell type: Human liver tumoral cell; passages: p3; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	8057136	164	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 3	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206768; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896624	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	486104635	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660418	SRX2896624	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264083	SAMN07206768	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BBD8ED9A7D273FA7D36EFDF7CE7FD009	A93989AA77917A7EA3BA735A6485698B
GSE84073	SRR5660422	GSM2653825	SRP077971	HCC3_T	HCC3_T	RNA-seq	HCC3-Tissue [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	8887417	178	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 60	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515147; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101631	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	4931098800	16436996	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943137	SRX3101631	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437574	SAMN07515147	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	19E5AE1C8329FD34260D5ACCB9289C7D	26DEEBC717744EB45D12581505BF0A26
GSE84073	SRR5660430	GSM2653833	SRP077971	Healthy1_O	Healthy1_O_1	RNA-seq	Healthy1-Organoid_1 [RNA-Seq]	Human liver organoid	cell type: Human liver progenitor; passages: p8; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	11289802	245	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 13	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206758; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896635	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	428185572	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660428	SRX2896635	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264092	SAMN07206758	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	1E4AC8468B58E6363F353FD46AC56021	F13F7115252144A1AC111392AC7173F5
GSE84073	SRR5660431	GSM2653834	SRP077971	Healthy1_O	Healthy1_O_2	RNA-seq	Healthy1-Organoid_2 [RNA-Seq]	Human liver organoid	cell type: Human liver progenitor; passages: p8; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	11522758	233	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 14	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206802; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896636	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	442720136	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660429	SRX2896636	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264094	SAMN07206802	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	6F713C8DC430C7BB7AC741C8BE9A2BB7	46AB638708DCD0E4F5D814575437AEB4
GSE84073	SRR5660416	GSM2653819	SRP077971	Healthy1_T	Healthy1_T_1	RNA-seq	Healthy1-Tissue_1 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	14687814	319	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 59	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515145; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101630	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:26	4494610200	14982034	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943131	SRX3101630	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437573	SAMN07515145	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	6BDC362BB45191FCED40B9E7201A6DEE	3B3EDC1A71E3CCFC0277838BCDE7166E
GSE84073	SRR5660417	GSM2653820	SRP077971	Healthy1_T	Healthy1_T_2	RNA-seq	Healthy1-Tissue_2 [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	15832253	319	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 59	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515145; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101630	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	4421224200	14737414	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943134	SRX3101630	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437573	SAMN07515145	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	96F0D7BE0B0C27AC9DFCB8247CCF9D90	872CDA20D39B3CA9EE9B4BDB019C871F
GSE84073	SRR5660432	GSM2653835	SRP077971	Healthy2_O	Healthy2_O	RNA-seq	Healthy2-Organoid [RNA-Seq]	Human liver organoid	cell type: Human liver progenitor; passages: p5; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	7612023	154	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 17	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206799; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896639	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	381126693	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660432	SRX2896639	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264097	SAMN07206799	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	6BCADF93A831C0C3EAA64F5EEE036AC3	9710BBB288A3B32051832E7F28133C6C
GSE84073	SRR5660433	GSM2653836	SRP077971	Healthy2_O	Healthy2_O_DM	RNA-seq	Healthy2-Organoid-DM [RNA-Seq]	Human liver organoid	cell type: Human liver progenitor; passages: p2; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	4925817	99	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 18 is cultured in differentiation medium	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206798; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896640	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	246490901	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660433	SRX2896640	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264098	SAMN07206798	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	3190A658A8D3A556D2FFBEE2DE1C05E5	E878792628556601E322BAF29F58E2EB
GSE84073	SRR5660418	GSM2653821	SRP077971	Healthy2_T	Healthy2_T	RNA-seq	Healthy2-Tissue [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	9718305	195	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 59	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515145; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101630	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:28	4542132900	15140443	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943132	SRX3101630	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437573	SAMN07515145	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	9DAD70A9808E24E35B16779C14F24020	5C7E80548FB053CF1EB7480CBFA51751
GSE84073	SRR5660434	GSM2653837	SRP077971	Healthy3_O	Healthy3_O	RNA-seq	Healthy3-Organoid [RNA-Seq]	Human liver organoid	cell type: Human liver progenitor; passages: p12; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	7909187	159	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 19	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206780; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896641	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	395419748	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660434	SRX2896641	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264101	SAMN07206780	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	424A22C4B8F6E50C893DE253C25E259C	5E7F8EDE435297909829B3A37F11F2A2
GSE84073	SRR5660435	GSM2653838	SRP077971	Healthy3_O	Healthy3_O_DM	RNA-seq	Healthy3-Organoid-DM [RNA-Seq]	Human liver organoid	cell type: Human liver progenitor; passages: p12; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	7676296	155	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Sample 20  is cultured in differentiation medium	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206779; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896642	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:45	384282895	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660435	SRX2896642	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264100	SAMN07206779	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E54456AF83746A43E098FAD9ED3609C8	7553483E8ADEF1993730759848C8AC69
GSE84073	SRR5660419	GSM2653822	SRP077971	Healthy3_T	Healthy3_T	RNA-seq	Healthy3-Tissue [RNA-Seq]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Organoid and tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods.	NA	Total RNA extracted using RNeasy mini kit (Qiagen); Smartseq2 method (doi:10.1038/nprot.2014.006)	total RNA	transcriptomic	cDNA	RNA-Seq	8559509	172	Aug 17 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 59	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07515145; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX3101630	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:33	4476924000	14923080	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5943133	SRX3101630	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2437573	SAMN07515145	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	71489C8466612631424AAAAC2703EF79	E32CC45BC1093F2A80F2CC3283E94B75
GSE84073	SRR5660515	GSM2653869	SRP077971	CC1_O1	CC1_O_early	WES	CC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p7; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14951204	1671	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 50, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206789; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896671	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	5332731000	17775770	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660506	SRX2896671	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264130	SAMN07206789	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	95717191834ED8D2C3A737A4AA9E451A	4E216C64D46710175F89F4A910DE7E9B
GSE84073	SRR5660516	GSM2653869	SRP077971	CC1_O1	CC1_O_early	WES	CC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p7; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14965798	1693	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 50, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206789; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896671	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5349053400	17830178	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660504	SRX2896671	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264130	SAMN07206789	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	08076F7E8FC58C850F9C5311DD0C7AB1	4EF297335EE4AA62F9DA438FFE6796F9
GSE84073	SRR5660517	GSM2653869	SRP077971	CC1_O1	CC1_O_early	WES	CC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p7; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14672277	1688	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 50, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206789; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896671	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5452843500	18176145	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660501	SRX2896671	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264130	SAMN07206789	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	4C002EBBC5B52994BF08E70B1C2BC836	500AC7FB129A294834517BD8C038F532
GSE84073	SRR5660518	GSM2653869	SRP077971	CC1_O1	CC1_O_early	WES	CC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p7; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14617917	1661	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 50, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206789; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896671	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	5457234600	18190782	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660503	SRX2896671	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264130	SAMN07206789	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	2167C7A08E0DC39CEF7432CD4ACB91CE	0F9C1FA607E154EE26D76ED79B76F653
GSE84073	SRR5660519	GSM2653870	SRP077971	CC1_O2	CC1_O_late	WES	CC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p20; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17292969	1914	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 51, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206788; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896672	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4805178900	16017263	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660509	SRX2896672	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264129	SAMN07206788	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	4A167610EF0D2AB4B3D3D8CD15C96FE8	441F7DACE9907BB74175B0972B2C5FEC
GSE84073	SRR5660520	GSM2653870	SRP077971	CC1_O2	CC1_O_late	WES	CC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p20; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17299100	1938	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 51, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206788; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896672	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	4952437800	16508126	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660507	SRX2896672	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264129	SAMN07206788	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	85B90717E03796FAD4A12EFC456299D5	D297D7ED23C972332EF05C970617DD0D
GSE84073	SRR5660521	GSM2653870	SRP077971	CC1_O2	CC1_O_late	WES	CC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p20; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16960560	1931	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 51, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206788; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896672	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	4808264700	16027549	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660510	SRX2896672	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264129	SAMN07206788	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	F1620B08DC14BDC1299A02596164A5A1	193E141B2ECEF789B8CBBC265809DEDB
GSE84073	SRR5660522	GSM2653870	SRP077971	CC1_O2	CC1_O_late	WES	CC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p20; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16955656	1907	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 51, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206788; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896672	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:00	4921766100	16405887	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660508	SRX2896672	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264129	SAMN07206788	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	6497B9DD4D4630661E112AD797443CC3	BAF892E81FD8B46A3FD3C57BFFDE87E0
GSE84073	SRR5660469	GSM2653858	SRP077971	CC1_T	CC1_T	WES	CC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18137377	2025	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 39	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206750; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896659	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4798741500	15995805	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660458	SRX2896659	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264117	SAMN07206750	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	F6DE474DD2A09882A20855D1C51384D6	2E4536CE9A395E073DF7874B37AF61B4
GSE84073	SRR5660470	GSM2653858	SRP077971	CC1_T	CC1_T	WES	CC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18224468	2058	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 39	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206750; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896659	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4847785800	16159286	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660457	SRX2896659	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264117	SAMN07206750	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	519C2C5C2F3E97719A820941BEEEABAB	6B7BF16D6889F0D53E930A56B7664CE0
GSE84073	SRR5660471	GSM2653858	SRP077971	CC1_T	CC1_T	WES	CC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17927555	2060	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 39	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206750; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896659	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4700470800	15668236	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660460	SRX2896659	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264117	SAMN07206750	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	0DAECEE4A15DF2BA933E24322F912F96	5F581DE4421E423C65D59723B61B82D8
GSE84073	SRR5660472	GSM2653858	SRP077971	CC1_T	CC1_T	WES	CC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17800786	2022	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 39	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206750; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896659	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:02	4670744700	15569149	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660459	SRX2896659	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264117	SAMN07206750	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	58653C041A0FD09378EB311A8076E079	3717E0EB8B877F2392C37E48354F58CE
GSE84073	SRR5660523	GSM2653871	SRP077971	CC2_O1	CC2_O_early	WES	CC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15065410	1742	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 52, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206787; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896673	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5611026900	18703423	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660512	SRX2896673	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264131	SAMN07206787	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	743754BC47B8CB388BB5627C319453FF	80AC5207971A8CE7FCC19517F8F08C05
GSE84073	SRR5660524	GSM2653871	SRP077971	CC2_O1	CC2_O_early	WES	CC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15045836	1766	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 52, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206787; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896673	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	5641818600	18806062	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660511	SRX2896673	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264131	SAMN07206787	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	6ACBE70346EF931754010AD529CF6210	3F8E439688BD41EF629F2560367018A7
GSE84073	SRR5660525	GSM2653871	SRP077971	CC2_O1	CC2_O_early	WES	CC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14711702	1757	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 52, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206787; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896673	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:04	5484369000	18281230	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660513	SRX2896673	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264131	SAMN07206787	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	AF77C83CF92C957C3EC5E42F098D4C8B	2DB0D5A18AA900526EB18078D0290B82
GSE84073	SRR5660526	GSM2653871	SRP077971	CC2_O1	CC2_O_early	WES	CC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14711081	1723	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 52, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206787; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896673	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:10	5490994800	18303316	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660514	SRX2896673	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264131	SAMN07206787	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	FF1B5D7D552C68FD4E94C4EC0D583765	8DE209E0263BBDE95BC5E599ECCA37AB
GSE84073	SRR5660527	GSM2653872	SRP077971	CC2_O2	CC2_O_late	WES	CC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p16; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17357553	1874	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 53, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206786; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896674	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	4385375100	14617917	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660518	SRX2896674	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264132	SAMN07206786	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	35EC5B7F507234C32680BFDC009270A6	A50353EA60B53A1134A0528781F5ED4F
GSE84073	SRR5660528	GSM2653872	SRP077971	CC2_O2	CC2_O_late	WES	CC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p16; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17185724	1876	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 53, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206786; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896674	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	4489739400	14965798	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660516	SRX2896674	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264132	SAMN07206786	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	CC1CEF80621FB7BE4D60CD3A4DED4713	13D2429B718157FC2693525793D3E278
GSE84073	SRR5660529	GSM2653872	SRP077971	CC2_O2	CC2_O_late	WES	CC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p16; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16764497	1861	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 53, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206786; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896674	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:58	4485361200	14951204	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660515	SRX2896674	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264132	SAMN07206786	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	8B493055C49DA2A1A8B53EF4CCE5D0D4	4F7E3B8A620BC024F0A6723A34F2A076
GSE84073	SRR5660530	GSM2653872	SRP077971	CC2_O2	CC2_O_late	WES	CC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p16; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16844584	1849	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 53, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206786; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896674	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:03	4401683100	14672277	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660517	SRX2896674	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264132	SAMN07206786	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	60976AD037B6F2B387438372E8970E77	FB6503367178006CD7040A75AD58C008
GSE84073	SRR5660473	GSM2653859	SRP077971	CC2_T	CC2_T	WES	CC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16220354	1769	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 40	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206749; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896660	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:52	4372784100	14575947	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660463	SRX2896660	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264118	SAMN07206749	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A7DA0130AAFF240BF3B8D8470A35BEB7	1FD0E6C88272C32C854311C70B10D3B4
GSE84073	SRR5660474	GSM2653859	SRP077971	CC2_T	CC2_T	WES	CC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16148730	1782	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 40	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206749; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896660	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4353413400	14511378	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660464	SRX2896660	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264118	SAMN07206749	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D026AB5668201B083FFCFEDC77DA4FD5	491F2F31C4202D630C8873434870BEF8
GSE84073	SRR5660475	GSM2653859	SRP077971	CC2_T	CC2_T	WES	CC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15762723	1771	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 40	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206749; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896660	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4456499100	14854997	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660462	SRX2896660	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264118	SAMN07206749	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	8F9677A0E1D48E02143C37FAC0663FC9	0F0B13206DB2CF0D7CAF0DF46D647F59
GSE84073	SRR5660476	GSM2653859	SRP077971	CC2_T	CC2_T	WES	CC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15766938	1752	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 40	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206749; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896660	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	4443060600	14810202	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660461	SRX2896660	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264118	SAMN07206749	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BFB30E8A561D0D5A624039E5779B8DB0	4B4B12C7EF10B8C37C0D77839994B3DF
GSE84073	SRR5660531	GSM2653873	SRP077971	CC3_O1	CC3_O_early	WES	CC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14782121	1618	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 54, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206785; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896675	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5187890700	17292969	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660519	SRX2896675	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264133	SAMN07206785	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BA173388DB510852DB9EE7BBB80778E8	4E881435D9145F367980A7BBA99ABE0C
GSE84073	SRR5660532	GSM2653873	SRP077971	CC3_O1	CC3_O_early	WES	CC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14686968	1625	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 54, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206785; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896675	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	5086696800	16955656	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660522	SRX2896675	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264133	SAMN07206785	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	EA5BE6D2250F2D83131CFA6D09659322	2B2B67A8333A0FFF8D9A3D9AB034D421
GSE84073	SRR5660533	GSM2653873	SRP077971	CC3_O1	CC3_O_early	WES	CC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14301825	1611	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 54, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206785; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896675	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	5088168000	16960560	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660521	SRX2896675	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264133	SAMN07206785	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	39D2F9FA2AAD9076B0F20A37F57C5627	6BC97B9375B436D56850E895318705C5
GSE84073	SRR5660534	GSM2653873	SRP077971	CC3_O1	CC3_O_early	WES	CC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14290977	1591	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 54, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206785; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896675	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:00	5189730000	17299100	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660520	SRX2896675	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264133	SAMN07206785	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	1F3CCBC37F2B6E6419280D49E6B8B75E	5B8CE0A41BE8D5A0EA5E1A7D4500AC13
GSE84073	SRR5660535	GSM2653874	SRP077971	CC3_O2	CC3_O_late	WES	CC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p10; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14778104	1608	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 55, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206784; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896676	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4413510600	14711702	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660525	SRX2896676	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264134	SAMN07206784	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	6BD981C1DBCED08695DEE38E9864C1BF	07B9E091FC867714486E312F70395940
GSE84073	SRR5660536	GSM2653874	SRP077971	CC3_O2	CC3_O_late	WES	CC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p10; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14590675	1605	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 55, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206784; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896676	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	4519623000	15065410	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660523	SRX2896676	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264134	SAMN07206784	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	EB55A1AFA331E44C3E5B997ACABC4745	4798760FA9ACAC977523A78D39D672A4
GSE84073	SRR5660537	GSM2653874	SRP077971	CC3_O2	CC3_O_late	WES	CC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p10; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14185793	1589	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 55, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206784; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896676	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:58	4513750800	15045836	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660524	SRX2896676	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264134	SAMN07206784	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	DBAA6F9098D2409BE1F8B4A33D326405	6FAD5C1E4EF7A689B89EC555AD89F712
GSE84073	SRR5660538	GSM2653874	SRP077971	CC3_O2	CC3_O_late	WES	CC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p10; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14232583	1578	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 55, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206784; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896676	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:00	4413324300	14711081	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660526	SRX2896676	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264134	SAMN07206784	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	519F2564F376463E81192AF8583FB855	2437454D9D637442CC950B2F0936C28A
GSE84073	SRR5660477	GSM2653860	SRP077971	CC3_T	CC3_T	WES	CC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16501439	1780	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 41	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206803; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896661	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	5281653000	17605510	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660467	SRX2896661	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264119	SAMN07206803	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7B27E6085EB7B57C7C2CC9BA26CD33D3	EC15A205ECC66E549668C4B7579A0F5E
GSE84073	SRR5660478	GSM2653860	SRP077971	CC3_T	CC3_T	WES	CC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16417575	1792	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 41	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206803; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896661	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5274273300	17580911	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660468	SRX2896661	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264119	SAMN07206803	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	CCFEEC1666ECB8712FAC64A2FFE24F61	63AFC56949C41B7EEC46184C7C905375
GSE84073	SRR5660479	GSM2653860	SRP077971	CC3_T	CC3_T	WES	CC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16078941	1788	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 41	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206803; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896661	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5385786600	17952622	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660466	SRX2896661	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264119	SAMN07206803	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7E54620F853C64C64CDDA9A1BB40B873	5DC6398317063468BD1D35A8FB5D17DB
GSE84073	SRR5660480	GSM2653860	SRP077971	CC3_T	CC3_T	WES	CC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16043874	1763	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 41	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206803; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896661	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	5409510900	18031703	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660465	SRX2896661	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264119	SAMN07206803	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	01936E724E1707BF1300EA60D714BB71	DF39BED8D4603C9A263BDDC9A7886893
GSE84073	SRR5660497	GSM2653865	SRP077971	CHC1_O1	CHC1_O_early	WES	CHC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16006129	1788	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 46, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206793; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896666	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4824295800	16080986	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660487	SRX2896666	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264124	SAMN07206793	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	9BA4404550DDBD3368A02E8940B9E8BC	B2ED50C3671787C6D13998BAA5823AA7
GSE84073	SRR5660498	GSM2653865	SRP077971	CHC1_O1	CHC1_O_early	WES	CHC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15998330	1808	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 46, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206793; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896666	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4932667800	16442226	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660486	SRX2896666	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264124	SAMN07206793	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	27E462C583DE5E741DAAA469FCC1AF27	0ACF30C94DAC2035F9A10A09D75DC193
GSE84073	SRR5660499	GSM2653865	SRP077971	CHC1_O1	CHC1_O_early	WES	CHC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15656986	1800	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 46, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206793; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896666	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	4925289600	16417632	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660485	SRX2896666	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264124	SAMN07206793	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	DE475D2869BD22B7A8A06CB4918DEE74	3C97CE1E6E80481C313511C41A2380E2
GSE84073	SRR5660500	GSM2653865	SRP077971	CHC1_O1	CHC1_O_early	WES	CHC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p4; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15648126	1776	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 46, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206793; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896666	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:59	4814501700	16048339	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660488	SRX2896666	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264124	SAMN07206793	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BBFB8A0CDE26C8398B27AA376190239F	248B7BB11FF3FF10958C50F5AA4A6DFC
GSE84073	SRR5660501	GSM2653866	SRP077971	CHC1_O2	CHC1_O_late	WES	CHC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p11; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18176145	2028	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 47, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206792; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896667	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:51	4079291100	13597637	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660491	SRX2896667	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264125	SAMN07206792	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	559CD044A51AF8BD8DCE8F26A8311956	62501C5E5495BC8B98BD0D1385F99021
GSE84073	SRR5660503	GSM2653866	SRP077971	CHC1_O2	CHC1_O_late	WES	CHC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p11; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18190782	2054	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 47, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206792; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896667	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:52	4092176700	13640589	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660492	SRX2896667	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264125	SAMN07206792	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	FBFE700B6E9C3312AB72825BCF917893	3209D08FB27C367F98F0777F74F86626
GSE84073	SRR5660504	GSM2653866	SRP077971	CHC1_O2	CHC1_O_late	WES	CHC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p11; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17830178	2047	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 47, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206792; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896667	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:52	4184798400	13949328	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660490	SRX2896667	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264125	SAMN07206792	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	966AC164B50E69A1084D4142645B6F74	B8E1AE4278D67ABCBF36DCCFC3B12617
GSE84073	SRR5660506	GSM2653866	SRP077971	CHC1_O2	CHC1_O_late	WES	CHC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p11; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17775770	2018	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 47, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206792; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896667	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4207630500	14025435	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660489	SRX2896667	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264125	SAMN07206792	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	DE68ED393A1F41D4B8BAD0BCE7708CC8	49EC1EBF4545A07586D55847296B4C1B
GSE84073	SRR5660461	GSM2653856	SRP077971	CHC1_T	CHC1_T	WES	CHC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14810202	1656	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 5 and 6 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206765; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896627	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:22	616505160	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5942927	SRX2896627	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264093	SAMN07206765	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A63186B65798DA45A76BD69CCA8ADB64	4433520BE5F287714AFC38BB0002ECCC
GSE84073	SRR5660462	GSM2653856	SRP077971	CHC1_T	CHC1_T	WES	CHC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14854997	1680	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 5 and 6 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206766; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896626	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:24	721781784	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5942552	SRX2896626	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264085	SAMN07206766	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	5C51BAA514C645CC6C801670377B8CD3	7DF5AE0D11F4ECDFE039F3AFEF84D9F0
GSE84073	SRR5660463	GSM2653856	SRP077971	CHC1_T	CHC1_T	WES	CHC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14575947	1676	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 8 and 9 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206762; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896631	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:22	658326059	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5942765	SRX2896631	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264088	SAMN07206762	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	95FD8F0920019483F129FC5967F8C79D	AE26693041F665D416EDC4C86479F100
GSE84073	SRR5660464	GSM2653856	SRP077971	CHC1_T	CHC1_T	WES	CHC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14511378	1650	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 8 and 9 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206763; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896629	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-08-17 15:23	734027930	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra51/SRR/005803/SRR5942928	SRX2896629	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264099	SAMN07206763	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	4A8D3E799AD288BA0EF477785F912FDD	7C85E4312962AB73922BFF0BB7A3EE9E
GSE84073	SRR5660507	GSM2653867	SRP077971	CHC2_O1	CHC2_O_early	WES	CHC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16508126	1806	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 48, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206791; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896669	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4777633500	15925445	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660493	SRX2896669	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264142	SAMN07206791	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	13176F2CE2BD827E3336C02295B30F70	616D8597054C5922684B36785CDB453D
GSE84073	SRR5660508	GSM2653867	SRP077971	CHC2_O1	CHC2_O_early	WES	CHC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16405887	1815	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 48, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206791; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896669	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4630536300	15435121	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660496	SRX2896669	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264142	SAMN07206791	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	C443D1DF2026D2097738EB18948340E2	4CF0818E888A959B9AFDD6B2227E2086
GSE84073	SRR5660509	GSM2653867	SRP077971	CHC2_O1	CHC2_O_early	WES	CHC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16017263	1804	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 48, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206791; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896669	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	4752888600	15842962	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660494	SRX2896669	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264142	SAMN07206791	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	A1507D183027E7509E97E29573948EA6	8EF0987616F58E998C6342CFC98228F7
GSE84073	SRR5660510	GSM2653867	SRP077971	CHC2_O1	CHC2_O_early	WES	CHC2-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16027549	1785	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 48, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206791; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896669	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	4635941100	15453137	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660495	SRX2896669	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264142	SAMN07206791	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	C0094F018B5D37E77D7A940ED3C60423	1D5BDAD4B2D1302FE54D3B2945B04448
GSE84073	SRR5660511	GSM2653868	SRP077971	CHC2_O2	CHC2_O_late	WES	CHC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18806062	2037	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 49, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206790; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896670	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:52	4697095800	15656986	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660499	SRX2896670	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264128	SAMN07206790	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	858E49EAA136A3879E75A328AA73A535	A8247E89737F7EAC2A10FC86974368C5
GSE84073	SRR5660512	GSM2653868	SRP077971	CHC2_O2	CHC2_O_late	WES	CHC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18703423	2050	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 49, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206790; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896670	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4694437800	15648126	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660500	SRX2896670	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264128	SAMN07206790	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	3C7E70472594872978A3AA2903664395	8D58E3F4EFFC85CB370D9E04E6B297A3
GSE84073	SRR5660513	GSM2653868	SRP077971	CHC2_O2	CHC2_O_late	WES	CHC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18281230	2039	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 49, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206790; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896670	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4801838700	16006129	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660497	SRX2896670	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264128	SAMN07206790	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	117B00B4B1CF12F719C7CB69F990F490	6234A2DBE17CCC49F5D1AB92018FD662
GSE84073	SRR5660514	GSM2653868	SRP077971	CHC2_O2	CHC2_O_late	WES	CHC2-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18303316	2019	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 49, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206790; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896670	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:58	4799499000	15998330	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660498	SRX2896670	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264128	SAMN07206790	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E58E3BB43037EECA20A548F31F50922A	F604239CA153265F9665B6659555BB3D
GSE84073	SRR5660465	GSM2653857	SRP077971	CHC2_T	CHC2_T	WES	CHC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	18031703	1938	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 38	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206751; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896658	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:52	4320709500	14402365	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660453	SRX2896658	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264116	SAMN07206751	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	9514F62EA5E5885FAB13B510FAEFE0ED	B6B1EB68C90E355A8FEEDAB7EAC481EF
GSE84073	SRR5660466	GSM2653857	SRP077971	CHC2_T	CHC2_T	WES	CHC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17952622	1953	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 38	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206751; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896658	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4305708600	14352362	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660455	SRX2896658	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264116	SAMN07206751	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D7014B05B2B82301B64FFEB89B13F854	E39E185FAEDE4BA30F275DCD4453D0AB
GSE84073	SRR5660467	GSM2653857	SRP077971	CHC2_T	CHC2_T	WES	CHC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17605510	1950	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 38	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206751; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896658	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4393498200	14644994	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660451	SRX2896658	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264116	SAMN07206751	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	ADBABD064D81456F367488BD6534E032	78E945E833B0655952D8289962CBF866
GSE84073	SRR5660468	GSM2653857	SRP077971	CHC2_T	CHC2_T	WES	CHC2-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17580911	1924	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 38	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206751; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896658	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	4410974100	14703247	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660452	SRX2896658	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264116	SAMN07206751	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	1A6B94B67C69862767020C9A8D3644D8	27E6BDE626D583E5CF8A702360593CBB
GSE84073	SRR5660481	GSM2653861	SRP077971	HCC1_O1	HCC1_O_early	WES	HCC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p9; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15520881	1728	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 42	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206797; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896662	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	5441213100	18137377	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660469	SRX2896662	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264120	SAMN07206797	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D94229FF13581D654B3EE0314113D496	DFF434D8AE46E7CC77190DBD653B0629
GSE84073	SRR5660482	GSM2653861	SRP077971	HCC1_O1	HCC1_O_early	WES	HCC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p9; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15536370	1749	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 42	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206797; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896662	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	5378266500	17927555	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660471	SRX2896662	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264120	SAMN07206797	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BF8D6774A21D2538F6DBD21873EC11D1	640D9C12A847E3C1A6946D06A3E52305
GSE84073	SRR5660483	GSM2653861	SRP077971	HCC1_O1	HCC1_O_early	WES	HCC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p9; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15240210	1744	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 42	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206797; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896662	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:58	5340235800	17800786	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660472	SRX2896662	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264120	SAMN07206797	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7F0108A90644AC1C6143CBCC7ED1986C	0E40C4351803294897E8393A81D96AC1
GSE84073	SRR5660484	GSM2653861	SRP077971	HCC1_O1	HCC1_O_early	WES	HCC1-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p9; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15182868	1716	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 42	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206797; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896662	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:08	5467340400	18224468	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660470	SRX2896662	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264120	SAMN07206797	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E4CC5115606D32435ABA527B5FD33F01	096291A7ED874C2CE7E55D0A37742E36
GSE84073	SRR5660485	GSM2653862	SRP077971	HCC1_O2	HCC1_O_late	WES	HCC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16417632	1828	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 43	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206796; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896663	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4866106200	16220354	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660473	SRX2896663	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264121	SAMN07206796	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	47DFD66F6C0041F37DE0D55440EAFC7F	A1A022F9FECEE4E6E5A7B1576582461C
GSE84073	SRR5660486	GSM2653862	SRP077971	HCC1_O2	HCC1_O_late	WES	HCC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16442226	1853	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 43	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206796; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896663	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4730081400	15766938	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660476	SRX2896663	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264121	SAMN07206796	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	F461CE440295AA5C13A538D55E718CCC	4B9E57C907D24ECBADE0915DDCE21CC4
GSE84073	SRR5660487	GSM2653862	SRP077971	HCC1_O2	HCC1_O_late	WES	HCC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16080986	1841	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 43	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206796; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896663	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4844619000	16148730	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660474	SRX2896663	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264121	SAMN07206796	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	B70991884A2530E8B4B250AE50E426EA	FD64438F229ABCE512E8998952908192
GSE84073	SRR5660488	GSM2653862	SRP077971	HCC1_O2	HCC1_O_late	WES	HCC1-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p19; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16048339	1816	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 43	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206796; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896663	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:09	4728816900	15762723	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660475	SRX2896663	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264121	SAMN07206796	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	F9A18B7C603B5715A979206974412147	240874046450F77066C2DE1B79B8C5FC
GSE84073	SRR5660451	GSM2653854	SRP077971	HCC1_T	HCC1_T	WES	HCC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14644994	1714	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 24 and 25 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206775; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896646	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	535107837	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660439	SRX2896646	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264105	SAMN07206775	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	754A0416F20270A16406CB5186D4A61E	5C5F388E3EE017BD77C4C74960867AC0
GSE84073	SRR5660452	GSM2653854	SRP077971	HCC1_T	HCC1_T	WES	HCC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14703247	1747	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	"Samples 24/25, 26 and 27 are biological replicates"	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206772; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896649	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	452199608	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660442	SRX2896649	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264108	SAMN07206772	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E3078CFBD67616CC0401A20ABC72C3EA	76144EB066D027A7EF5171CBE7DCC74D
GSE84073	SRR5660453	GSM2653854	SRP077971	HCC1_T	HCC1_T	WES	HCC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14402365	1738	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	"Samples 24/25, 26 and 27 are biological replicates"	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206773; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896648	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	560964824	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660441	SRX2896648	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264106	SAMN07206773	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	69320E93DE7BE1D8EAF1B638729C9106	7B5E13AFF9918BE5ED4E325A1D13629E
GSE84073	SRR5660455	GSM2653854	SRP077971	HCC1_T	HCC1_T	WES	HCC1-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14352362	1700	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 29 and 30 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206748; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896651	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	667379823	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660444	SRX2896651	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264110	SAMN07206748	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	FAE6619A8A661E73EA745AA1EB15D9BC	121B2080FD596404827875E58D4D0CF2
GSE84073	SRR5660489	GSM2653863	SRP077971	HCC3_O1	HCC3_O_early	WES	HCC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p3; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14025435	1543	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 44	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206795; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896664	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4950431700	16501439	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660477	SRX2896664	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264122	SAMN07206795	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	E6D49F43EF33FE540D15FD63D063CF39	2528F5CADF97F5DC35E3D98E987DB7BA
GSE84073	SRR5660490	GSM2653863	SRP077971	HCC3_O1	HCC3_O_early	WES	HCC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p3; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	13949328	1552	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 44	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206795; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896664	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4823682300	16078941	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660479	SRX2896664	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264122	SAMN07206795	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	95F7DED4C31AF47FC49C6CB5B2432183	838AAF7A7B1D70A2F6626C7889047C5B
GSE84073	SRR5660491	GSM2653863	SRP077971	HCC3_O1	HCC3_O_early	WES	HCC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p3; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	13597637	1540	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 44	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206795; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896664	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4813162200	16043874	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660480	SRX2896664	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264122	SAMN07206795	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	27E47F081694EC42EE0E32E50C5F67ED	0B4282C6DA8ABC91BAA3E6597CF8C077
GSE84073	SRR5660492	GSM2653863	SRP077971	HCC3_O1	HCC3_O_early	WES	HCC3-Organoid-early [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p3; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	13640589	1527	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	Sample 44	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206795; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896664	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4925272500	16417575	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660478	SRX2896664	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264122	SAMN07206795	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	639E72823524EF8641B5831D75E29761	7451933550B6BFA9CDE9431A39B2A0DF
GSE84073	SRR5660493	GSM2653864	SRP077971	HCC3_O2	HCC3_O_late	WES	HCC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15925445	1737	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 45, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206794; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896665	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:51	4572063000	15240210	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660483	SRX2896665	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264123	SAMN07206794	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	BC29267CADD83E990E15CAAB2D140E2F	B4C6C60694678E406F78A809D97AD6C9
GSE84073	SRR5660494	GSM2653864	SRP077971	HCC3_O2	HCC3_O_late	WES	HCC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15842962	1748	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 45, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206794; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896665	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4660911000	15536370	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660482	SRX2896665	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264123	SAMN07206794	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	0133BEE8A33936A76D1907E56011359B	136CBDA9C1F3F41DC32DCBDA3D0E12E3
GSE84073	SRR5660495	GSM2653864	SRP077971	HCC3_O2	HCC3_O_late	WES	HCC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15453137	1735	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 45, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206794; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896665	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4554860400	15182868	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660484	SRX2896665	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264123	SAMN07206794	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	90217B87814BB4842ECDBFD2D8C8BCC8	FF799EF161F9AAA02551057443E8E7D9
GSE84073	SRR5660496	GSM2653864	SRP077971	HCC3_O2	HCC3_O_late	WES	HCC3-Organoid-late [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p6; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15435121	1713	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 45, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206794; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896665	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:09	4656264300	15520881	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660481	SRX2896665	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264123	SAMN07206794	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D1DD875BDC4B25DFC21205A3E9EE3640	9AD5698B631698576445BA938B63E4F2
GSE84073	SRR5660457	GSM2653855	SRP077971	HCC3_T	HCC3_T	WES	HCC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16159286	1729	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	Samples 29 and 30 are technical replicates	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206757; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896652	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	665971327	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660445	SRX2896652	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264111	SAMN07206757	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	853BC61C1F8D8C41474E7EBB7F80CF76	249BEF8CE3E8E64615952A65C94B5D1D
GSE84073	SRR5660458	GSM2653855	SRP077971	HCC3_T	HCC3_T	WES	HCC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15995805	1732	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	"Samples 29/30, 31, 32, 33  are biological replicates"	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206754; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896655	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	515421314	0	50	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660448	SRX2896655	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264112	SAMN07206754	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	DD3683F5828CC8B37E07C4E570A18DCB	FB97FABFB158D00DEAC45C5770C55A3C
GSE84073	SRR5660459	GSM2653855	SRP077971	HCC3_T	HCC3_T	WES	HCC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15569149	1714	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	"Samples 29/30, 31, 32, 33  are biological replicates"	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206755; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896654	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:46	477997050	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660447	SRX2896654	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264113	SAMN07206755	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D0EC52D7C8589929BCD5E3BE3DEEC64A	64A51060215C5BC8837B17AC3FF60E41
GSE84073	SRR5660460	GSM2653855	SRP077971	HCC3_T	HCC3_T	WES	HCC3-Tissue [WES]	Human liver tissue	cell type: Human liver biopsy; passages: N/A; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15668236	1706	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL18460	Illumina HiSeq 1500	"Samples 29/30, 31, 32, 33  are biological replicates"	RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206756; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896653	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:47	507022272	0	49	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660446	SRX2896653	NA	RNA-Seq	cDNA	TRANSCRIPTOMIC	SINGLE	0	0	ILLUMINA	Illumina HiSeq 1500	SRP077971	PRJNA327939	NA	327939	SRS2264127	SAMN07206756	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	12734AA72157FE6CB2921241B85E3E98	17F29C9FC109184156A893515DA6D65F
GSE84073	SRR5943135	GSM2746363	SRP077971	Healthy1_O	Healthy1_O	WES	Healthy1-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16756298	1865	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 57, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206782; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896678	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:53	4287293100	14290977	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660534	SRX2896678	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264156	SAMN07206782	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	AEA49165EBE0F44DE65231693F0DDD28	7A0BE081D79A66CDDE401C708174C0A2
GSE84073	SRR5943136	GSM2746363	SRP077971	Healthy1_O	Healthy1_O	WES	Healthy1-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16756890	1887	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 57, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206782; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896678	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4290547500	14301825	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660533	SRX2896678	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264156	SAMN07206782	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	4BBAF0FD23EE0EE62BF3038F67E69155	F9A75BEB25B4F208265D1A30A0CB674D
GSE84073	SRR5943137	GSM2746363	SRP077971	Healthy1_O	Healthy1_O	WES	Healthy1-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16436996	1883	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 57, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206782; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896678	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	4406090400	14686968	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660532	SRX2896678	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264156	SAMN07206782	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	67A31362B4B85361F8B52A6A30B4648F	527D788BDEDDC51024DD1B0B8609B914
GSE84073	SRR5943138	GSM2746363	SRP077971	Healthy1_O	Healthy1_O	WES	Healthy1-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p8; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	16446938	1861	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 57, tumouroids expanded for short period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206782; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896678	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:56	4434636300	14782121	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660531	SRX2896678	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264156	SAMN07206782	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	D2CB780AB6E199241E164ECE8C6EEBF7	EFDE8D5CAA91FCE2BA522499ADF9997A
GSE84073	SRR5943131	GSM2746362	SRP077971	Healthy1_T	Healthy1_T	WES	Healthy1-Tissue [WES]	Human liver tissue	cell type: Human liver tumoral cell; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14982034	1774	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 56, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206783; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896677	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	5029349100	16764497	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660529	SRX2896677	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264135	SAMN07206783	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	0D165B2FB48807F5AF4F995EE9C62CD0	70E9F5D8A28B54D464A0EEAAB24B1919
GSE84073	SRR5943132	GSM2746362	SRP077971	Healthy1_T	Healthy1_T	WES	Healthy1-Tissue [WES]	Human liver tissue	cell type: Human liver tumoral cell; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	15140443	1820	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 56, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206783; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896677	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	5155717200	17185724	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra47/SRR/005527/SRR5660528	SRX2896677	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264135	SAMN07206783	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	19776279D6399EF83A6F3317FF674EDF	B78916B39D9D3928B28E6D554ECAA7C5
GSE84073	SRR5943133	GSM2746362	SRP077971	Healthy1_T	Healthy1_T	WES	Healthy1-Tissue [WES]	Human liver tissue	cell type: Human liver tumoral cell; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14923080	1824	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 56, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206783; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896677	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:57	5053375200	16844584	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660530	SRX2896677	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264135	SAMN07206783	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	7A4496088D20334656655124E6B7C740	A0733C79228D055013FF0B8229CBC9C5
GSE84073	SRR5943134	GSM2746362	SRP077971	Healthy1_T	Healthy1_T	WES	Healthy1-Tissue [WES]	Human liver tissue	cell type: Human liver tumoral cell; passages: N/A; gender: M	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	14737414	1765	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 56, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206783; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896677	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:08	5207265900	17357553	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra48/SRR/005527/SRR5660527	SRX2896677	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264135	SAMN07206783	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	274772F67C2C45D5720098057EFD0A7E	D053B1AFDE93EC2B7A5FCEA471EAE47A
GSE84073	SRR5943139	GSM2746364	SRP077971	Healthy2_O	Healthy2_O	WES	Healthy2-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p5; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17858938	2004	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 58, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206781; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896679	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:54	4433431200	14778104	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra49/SRR/005527/SRR5660535	SRX2896679	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264136	SAMN07206781	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	51AC822D0CE504D6515E4B1FACC0549A	97D7DA7BCDB540ED0EF98E21952CC49F
GSE84073	SRR5943140	GSM2746364	SRP077971	Healthy2_O	Healthy2_O	WES	Healthy2-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p5; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17915817	2034	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 58, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206781; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896679	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 10:55	4377202500	14590675	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660536	SRX2896679	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264136	SAMN07206781	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	160A7284186E07B453CAE2EEB88951A4	FFA0F3E5EC81D0E2BF0DDCB78F50D7D4
GSE84073	SRR5943141	GSM2746364	SRP077971	Healthy2_O	Healthy2_O	WES	Healthy2-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p5; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17583027	2028	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 58, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206781; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896679	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:01	4269774900	14232583	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660538	SRX2896679	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264136	SAMN07206781	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	2E6241634D0D2D00401B4A3817721F74	C9BDF0AAAB6268501B06403CEFD93BD8
GSE84073	SRR5943142	GSM2746364	SRP077971	Healthy2_O	Healthy2_O	WES	Healthy2-Organoid [WES]	Human liver organoid	cell type: Human liver tumoral cell; passages: p5; gender: F	Tumoroid cultures were grown from single isolated cells and cultured as described in Material and Methods	NA	"Total DNA extracted using DNeasy Blood & Tissue Kit (Qiagen) following manufacturer's instructions.; Exome, SeqCap EZ Library SR (human)"	genomic DNA	genomic	other	OTHER	17536922	1999	Jun 08 2017	Public on Nov 13 2017	Nov 13 2017	9606	GPL20301	Illumina HiSeq 4000	"Sample 58, tumouroids expanded for extended period"	Library strategy: WES; RNAseq; Removed low quality reads (<Q20) and trimmed low quality bases (<Q20); Mapped to hg19 using TopHat; Counts generated and DE performed using edgeR; Genome_build: hg19; Supplementary_files_format_and_content: Counts; WES; Reads were aligned to the UCSC hg38 genome using Bowtie2 (v2.2.6); Reads were preprocessed for variant calling by marking duplicates with Picard; Indel realignment with the GATK toolkit; SNPs and Indels were called with Varscan (v.2.3) from SAMtools (v1.3.1) mpileup files; Genome_build: hg38; Supplementary_files_format_and_content: Variant Calls	0	BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN07206781; SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX2896679	SRA	1	Tennis Court Road	Cambridge	United Kingdom	NA	Gurdon Institute	"Charles,Richard,Bradshaw"	NA	CB2 1QN	17-11-15 17:00	17-06-09 11:03	4255737900	14185793	300	NA	https://sra-download.ncbi.nlm.nih.gov/traces/sra44/SRR/005527/SRR5660537	SRX2896679	NA	OTHER	other	GENOMIC	PAIRED	0	0	ILLUMINA	Illumina HiSeq 4000	SRP077971	PRJNA327939	NA	327939	SRS2264136	SAMN07206781	simple	9606	Homo sapiens	NA	NA	NA	NA	NA	NA	no	NA	NA	NA	NA	GEO	SRA438088	NA	public	8F14DFBD2022B160F8DE50CB5CC0F443	A1F9D850F3E58B980CE24ACE79520131