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Sample GSM2071344 Query DataSets for GSM2071344
Status Public on Mar 18, 2016
Title single cell RNA-seq from GM12878 (ENCLB206JYT)
Sample type SRA
 
Source name Homo sapiens GM12878 immortalized cell line
Organism Homo sapiens
Characteristics line: GM12878
biomaterial_type: immortalized cell line
description: Single GM12878 cell, part of a set of 10
biosample encode accession: ENCBS381VEV (SAMN04284362)
age: unknown
dev stage: adult
Sex: female
health state: unknown
lab: Barbara Wold, Caltech
link: ENCBS381VEV at ENCODE; https://www.encodeproject.org/ENCBS381VEV/
link: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/
link: growth protocol; https://www.encodeproject.org/documents/1bb75b62-ac29-4368-9855-68d410e1963a/@@download/attachment/GM12878_protocol.pdf
link: ENCODE dbxrefs Cellosaurus CVCL_7526; http://web.expasy.org/cellosaurus/CVCL_7526
link: Coriell sample source; http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM12878&PgId=166
Extracted molecule total RNA
Extraction protocol general protocol: https://www.encodeproject.org/documents/e3110414-4013-425e-94f6-72c549702bde/@@download/attachment/Supplemental_Material.pdf
extraction method: None
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description https://www.encodeproject.org/experiments/ENCSR184CWK/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single GM12878 cell
experiment encode accession: ENCSR184CWK
assay title: single cell RNA-seq
assembly: GRCh38, hg19
possible controls: ENCSR673UIY
encode release date: 2014-06-30
lab: Barbara Wold, Caltech
library encode accession: ENCLB206JYT
size range: >200
spikeins used: /references/ENCSR013YHQ/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: cells
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Feb 24, 2016
Last update date May 15, 2019
Contact name ENCODE DCC
E-mail(s) encode-help@lists.stanford.edu
Organization name ENCODE DCC
Street address 300 Pasteur Dr
City Stanford
State/province CA
ZIP/Postal code 94305-5120
Country USA
 
Platform ID GPL11154
Series (1)
GSE78339 single cell RNA-seq from GM12878 (ENCSR184CWK)
Relations
SRA SRX1603039
BioSample SAMN04284362
Named Annotation GSM2071344_ENCFF194IIF_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2071344_ENCFF395PUS_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2071344_ENCFF017RCV_transcript_quantifications_GRCh38.tsv.gz 6.7 Mb (ftp)(http) TSV
GSM2071344_ENCFF097RNQ_signal_of_all_reads_hg19.bigWig 19.8 Mb (ftp)(http) BIGWIG
GSM2071344_ENCFF194IIF_signal_of_unique_reads_GRCh38.bigWig 22.1 Mb (ftp)(http) BIGWIG
GSM2071344_ENCFF320RFW_signal_of_unique_reads_hg19.bigWig 21.1 Mb (ftp)(http) BIGWIG
GSM2071344_ENCFF395PUS_signal_of_all_reads_GRCh38.bigWig 22.0 Mb (ftp)(http) BIGWIG
GSM2071344_ENCFF613BUH_signal_of_unique_reads_hg19.bigWig 22.1 Mb (ftp)(http) BIGWIG
GSM2071344_ENCFF633QJC_signal_of_all_reads_hg19.bigWig 21.8 Mb (ftp)(http) BIGWIG
GSM2071344_ENCFF654CLN_gene_quantifications_hg19.tsv.gz 2.4 Mb (ftp)(http) TSV
GSM2071344_ENCFF671YRD_transcript_quantifications_hg19.tsv.gz 6.5 Mb (ftp)(http) TSV
GSM2071344_ENCFF699SNV_gene_quantifications_GRCh38.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2071344_ENCLB206JYT_README.txt.gz 980 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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