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Sample GSM2072423 Query DataSets for GSM2072423
Status Public on Mar 18, 2016
Title polyA mRNA RNA-seq from endothelial cell of umbilical vein (ENCLB555AVK)
Sample type SRA
 
Source name Homo sapiens endothelial of umbilical vein primary cell male newborn
Organism Homo sapiens
Characteristics cell_type: endothelial cell of umbilical vein
biomaterial_type: primary cell
description: umbilical vein endothelial cells
biosample encode accession: ENCBS529ENC (SAMN04284426)
age: unknown
donor_id: ENCDO341AAA
dev stage: newborn
Sex: male
health state: unknown
lab: Thomas Gingeras, CSHL
link: ENCBS529ENC at ENCODE; https://www.encodeproject.org/ENCBS529ENC/
link: Derived from ENCODE donor ENCDO341AAA; https://www.encodeproject.org/ENCDO341AAA/
link: ENCODE dbxrefs HUVEC; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=HUVEC
link: Lonza sample source; http://www.lonza.com/products-services/bio-research/primary-and-stem-cells/human-cells-and-media/endothelial-cells-and-media/huvec-human-umbilical-vein-endothelial-cells.aspx
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/fb66948b-8b40-4c13-8542-bd527137ad80/@@download/attachment/LID8464.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer IIx
 
Description https://www.encodeproject.org/experiments/ENCSR000COZ/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA-seq on human HUVEC whole cell long polyA+ RNA
experiment encode accession: ENCSR000COZ
assay title: polyA mRNA RNA-seq
assembly: GRCh38, hg19
encode release date: 2011-10-17
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB555AVK
size range: >200
spikeins used: /references/ENCSR402QNO/
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 GPL10999
Series (1)
GSE78588 polyA mRNA RNA-seq from endothelial cell of umbilical vein (ENCSR000COZ)
Relations
SRA SRX1603459
BioSample SAMN04284426
Named Annotation GSM2072423_ENCFF890BTZ_plus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2072423_ENCFF723FTP_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2072423_ENCFF189BUI_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2072423_ENCFF563FKQ_minus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2072423_ENCFF170QMM_minus_strand_signal_of_unique_reads_hg19.bigWig 140.8 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF189BUI_minus_strand_signal_of_unique_reads_GRCh38.bigWig 149.0 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF209NMC_minus_strand_signal_of_unique_reads_hg19.bigWig 148.4 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF278MHA_plus_strand_signal_of_unique_reads_hg19.bigWig 152.5 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF322QPX_minus_strand_signal_of_all_reads_hg19.bigWig 154.4 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF530HNB_gene_quantifications_hg19.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2072423_ENCFF560ZLH_plus_strand_signal_of_all_reads_hg19.bigWig 157.4 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF563FKQ_minus_strand_signal_of_all_reads_GRCh38.bigWig 164.1 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF650CVW_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2072423_ENCFF690JZR_minus_strand_signal_of_all_reads_hg19.bigWig 162.8 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF723FTP_plus_strand_signal_of_unique_reads_GRCh38.bigWig 152.6 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF860IST_plus_strand_signal_of_all_reads_hg19.bigWig 165.8 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF867URU_transcript_quantifications_hg19.tsv.gz 7.8 Mb (ftp)(http) TSV
GSM2072423_ENCFF873DKO_plus_strand_signal_of_unique_reads_hg19.bigWig 144.8 Mb (ftp)(http) BIGWIG
GSM2072423_ENCFF887FYR_transcript_quantifications_GRCh38.tsv.gz 7.8 Mb (ftp)(http) TSV
GSM2072423_ENCFF890BTZ_plus_strand_signal_of_all_reads_GRCh38.bigWig 166.9 Mb (ftp)(http) BIGWIG
GSM2072423_ENCLB555AVK_README.txt.gz 2.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data is available on Series record

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