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Sample GSM2072365 Query DataSets for GSM2072365
Status Public on Mar 18, 2016
Title total RNA-seq from K562 (ENCLB057ZZZ)
Sample type SRA
 
Source name Homo sapiens K562 immortalized cell line
Organism Homo sapiens
Characteristics line: K562
biomaterial_type: immortalized cell line
description: The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises. ENCODE3 RNA-seq evaluation replicate 1.
biosample encode accession: ENCBS087RNA (SAMN04284324)
age: 53 year
dev stage: adult
passage number: 5
Sex: female
health state: chronic myelogenous leukemia (CML)
lab: Brenton Graveley, UConn
link: ENCBS087RNA at ENCODE; https://www.encodeproject.org/ENCBS087RNA/
link: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/
link: growth protocol; https://www.encodeproject.org/documents/24b67f9c-c791-4a2a-a33b-419794e4681a/@@download/attachment/Graveley-K562-growth-protocol.pdf
link: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004
link: ATCC sample source; http://www.atcc.org/Products/All/CCL-243.aspx
Extracted molecule total RNA
Extraction protocol extraction method: Trizol (LifeTech cat#: 15596-018)
data sheet: https://www.encodeproject.org/documents/75771109-b79e-43d5-9cc0-2dbf708a71f1/@@download/attachment/NIST-ERCC-Spikes.pdf, spike-in concentrations: https://www.encodeproject.org/documents/122fc48c-aec6-4113-9821-178a435a8646/@@download/attachment/NIST-ERCC-Pool15.tsv
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description https://www.encodeproject.org/experiments/ENCSR000AEN/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA Evaluation K562 Long Total from Graveley
experiment encode accession: ENCSR000AEN
assay title: total RNA-seq
assembly: GRCh38, hg19
encode release date: 2014-06-30
lab: Brenton Graveley, UConn
library encode accession: ENCLB057ZZZ
size range: >200
spikeins used: /references/ENCSR449DXG/
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Feb 25, 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)
GSE78558 total RNA-seq from K562 (ENCSR000AEN)
Relations
SRA SRX1603395
BioSample SAMN04284324
Named Annotation GSM2072365_ENCFF456TGV_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF118MJD_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF887AYR_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF451DAY_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF807HQO_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF172MWL_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF291SEO_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072365_ENCFF471XSG_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2072365_ENCFF001RWV_minus_strand_signal_of_unique_reads_hg19.bigWig 163.9 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001RXD_plus_strand_signal_of_unique_reads_hg19.bigWig 166.5 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001RXL_minus_strand_signal_of_all_reads_hg19.bigWig 177.8 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001RXT_plus_strand_signal_of_all_reads_hg19.bigWig 178.9 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SEP_plus_strand_signal_of_unique_reads_hg19.bigWig 188.6 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SEQ_minus_strand_signal_of_unique_reads_hg19.bigWig 185.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SER_minus_strand_signal_hg19.bigWig 195.3 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SEU_plus_strand_signal_hg19.bigWig 196.8 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SKQ_minus_strand_signal_of_unique_reads_hg19.bigWig 187.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SKR_plus_strand_signal_of_all_reads_hg19.bigWig 207.1 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SKT_plus_strand_signal_of_unique_reads_hg19.bigWig 190.9 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF001SKU_minus_strand_signal_of_all_reads_hg19.bigWig 206.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF082SVY_minus_strand_signal_of_all_reads_hg19.bigWig 197.7 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF118MJD_minus_strand_signal_of_unique_reads_GRCh38.bigWig 195.0 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF172MWL_plus_strand_signal_of_all_reads_GRCh38.bigWig 221.4 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF238WZY_minus_strand_signal_of_unique_reads_hg19.bigWig 183.4 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF291SEO_minus_strand_signal_of_all_reads_GRCh38.bigWig 218.9 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF345SBQ_transcript_quantifications_GRCh38.tsv.gz 7.9 Mb (ftp)(http) TSV
GSM2072365_ENCFF363JRF_transcript_quantifications_hg19.tsv.gz 7.7 Mb (ftp)(http) TSV
GSM2072365_ENCFF436ZDX_plus_strand_signal_of_unique_reads_hg19.bigWig 187.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF451DAY_minus_strand_signal_of_unique_reads_GRCh38.bigWig 180.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF456TGV_plus_strand_signal_of_unique_reads_GRCh38.bigWig 183.9 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF464HGS_plus_strand_signal_of_all_reads_hg19.bigWig 216.9 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF471XSG_plus_strand_signal_of_unique_reads_GRCh38.bigWig 199.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF534SDC_gene_quantifications_hg19.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2072365_ENCFF553DDU_gene_quantifications_GRCh38.tsv.gz 2.7 Mb (ftp)(http) TSV
GSM2072365_ENCFF578WIM_minus_strand_signal_of_unique_reads_hg19.bigWig 195.6 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF617ZPZ_minus_strand_signal_of_all_reads_hg19.bigWig 215.0 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF657EOD_plus_strand_signal_of_unique_reads_hg19.bigWig 199.7 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF807HQO_plus_strand_signal_of_all_reads_GRCh38.bigWig 194.1 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF887AYR_minus_strand_signal_of_all_reads_GRCh38.bigWig 191.2 Mb (ftp)(http) BIGWIG
GSM2072365_ENCFF934OIM_plus_strand_signal_of_all_reads_hg19.bigWig 200.4 Mb (ftp)(http) BIGWIG
GSM2072365_ENCLB057ZZZ_README.txt.gz 2.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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