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Sample GSM2400214 Query DataSets for GSM2400214
Status Public on Dec 07, 2016
Title polyA mRNA RNA-seq from A549 (ENCLB555ASA)
Sample type SRA
 
Source name Homo sapiens A549 immortalized cell line nuclear fraction
Organism Homo sapiens
Characteristics line: A549
biomaterial_type: immortalized cell line
description: epithelial cell line derived from a 58 year old caucasian male lung carcinoma.
biosample encode accession: ENCBS447ENC (SAMN06044714)
dev stage: adult
Sex: male
age: 58 year
lab: Thomas Gingeras, CSHL
subcellular fraction term name: nucleus
link: ENCBS447ENC at ENCODE; https://www.encodeproject.org/ENCBS447ENC/
link: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/
link: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023
link: ENCODE dbxrefs A549; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=A549
link: ATCC sample source; http://www.atcc.org/products/all/CCL-185.aspx
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/6315bb22-d367-4f01-b8be-b3328588c33b/@@download/attachment/LID45899.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description https://www.encodeproject.org/experiments/ENCSR000CTM/
***************
biological replicate number: 3
technical replicate number: 1
description: The libraries contained in this experiment come from the nuclear fraction of independent growths of cell line A549. They are stranded PE76 Illumina GAIIx RNA-Seq libraries from rRNA-depleted Poly-A+ RNA > 200 nucleotides in size.
experiment encode accession: ENCSR000CTM
assay title: polyA mRNA RNA-seq
assembly: GRCh38, hg19
encode release date: 2012-06-21
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB555ASA
size range: >200
spikeins used: /references/ENCSR402QNO/
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Nov 22, 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)
GSE90259 polyA mRNA RNA-seq from A549 (ENCSR000CTM)
Relations
BioSample SAMN06044714
SRA SRX2370534
Named Annotation GSM2400214_ENCFF513HBQ_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2400214_ENCFF403GIG_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2400214_ENCFF405QHV_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2400214_ENCFF196ERN_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2400214_ENCFF196ERN_minus_strand_signal_of_all_reads_GRCh38.bigWig 239.0 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF376QTI_minus_strand_signal_of_all_reads_hg19.bigWig 239.4 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF403GIG_minus_strand_signal_of_unique_reads_GRCh38.bigWig 222.0 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF405QHV_plus_strand_signal_of_all_reads_GRCh38.bigWig 247.7 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF407SZF_transcript_quantifications_GRCh38.tsv.gz 8.0 Mb (ftp)(http) TSV
GSM2400214_ENCFF492OGP_gene_quantifications_hg19.tsv.gz 2.5 Mb (ftp)(http) TSV
GSM2400214_ENCFF505GJJ_minus_strand_signal_of_unique_reads_hg19.bigWig 220.8 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF513HBQ_plus_strand_signal_of_unique_reads_GRCh38.bigWig 231.7 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF578YTC_transcript_quantifications_hg19.tsv.gz 7.9 Mb (ftp)(http) TSV
GSM2400214_ENCFF630HJD_plus_strand_signal_of_all_reads_hg19.bigWig 247.9 Mb (ftp)(http) BIGWIG
GSM2400214_ENCFF853JHY_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2400214_ENCFF960KVD_plus_strand_signal_of_unique_reads_hg19.bigWig 230.8 Mb (ftp)(http) BIGWIG
GSM2400214_ENCLB555ASA_README.txt.gz 1.8 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data is available on Series record
Processed data provided as supplementary file

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