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Sample GSM2400240 Query DataSets for GSM2400240
Status Public on Dec 07, 2016
Title polyA mRNA RNA-seq from CD14-positive monocyte (ENCLB555AWY)
Sample type SRA
 
Source name Homo sapiens CD14-positive monocyte primary cell female
Organism Homo sapiens
Characteristics cell_type: CD14-positive monocyte
biomaterial_type: primary cell
description: Monocytes-CD14+ are CD14-positive cells from human leukapheresis production, from donor RO 01746 (draw 1 ID is RO 01746, draw 2 ID is RO 01826), Monocytes-CD14+_RO01746 and Monocytes-CD14+_RO01826 are being used as replicates, newly promoted to tier 2: not in 2011 analysis
biosample encode accession: ENCBS626ENC (SAMN06044634)
dev stage: unknown
Sex: female
donor_id: ENCDO265AAA
age: unknown
health state: unknown
lab: Thomas Gingeras, CSHL
link: ENCBS626ENC at ENCODE; https://www.encodeproject.org/ENCBS626ENC/
link: Derived from ENCODE donor ENCDO265AAA; https://www.encodeproject.org/ENCDO265AAA/
link: ENCODE dbxrefs Monocytes-CD14+_RO01746; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=Monocytes-CD14+_RO01746
link: Heimfeld sample source; http://labs.fhcrc.org/heimfeld/contact.html
Extracted molecule total RNA
Extraction protocol extraction method: see document
general protocol: https://www.encodeproject.org/documents/7870b6db-c081-4c62-9090-380640bd60f1/@@download/attachment/LID44497.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer IIx
 
Description https://www.encodeproject.org/experiments/ENCSR000CUC/
***************
biological replicate number: 2
technical replicate number: 1
description: The libraries contained in this experiment come from the whole cell fraction of independent isolates of mobilized CD14+ monocytes. They are stranded PE101 Illumina Hi-Seq RNA-Seq libraries from rRNA-depleted Poly-A+ RNA > 200 nucleotides in size.
experiment encode accession: ENCSR000CUC
assay title: polyA mRNA RNA-seq
assembly: GRCh38, hg19
encode release date: 2012-06-21
lab: Thomas Gingeras, CSHL
library encode accession: ENCLB555AWY
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 GPL10999
Series (1)
GSE90272 polyA mRNA RNA-seq from CD14-positive monocyte (ENCSR000CUC)
Relations
BioSample SAMN06044634
SRA SRX2370556
Named Annotation GSM2400240_ENCFF724GUM_minus_strand_signal_of_all_reads_GRCh38.bigWig
Named Annotation GSM2400240_ENCFF676HVY_plus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2400240_ENCFF336UAC_minus_strand_signal_of_unique_reads_GRCh38.bigWig
Named Annotation GSM2400240_ENCFF902LWD_plus_strand_signal_of_all_reads_GRCh38.bigWig

Supplementary file Size Download File type/resource
GSM2400240_ENCFF005IVU_plus_strand_signal_of_unique_reads_hg19.bigWig 100.2 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF256KUG_minus_strand_signal_of_all_reads_hg19.bigWig 104.4 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF336UAC_minus_strand_signal_of_unique_reads_GRCh38.bigWig 96.4 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF397DFK_gene_quantifications_GRCh38.tsv.gz 2.6 Mb (ftp)(http) TSV
GSM2400240_ENCFF400ACO_minus_strand_signal_of_unique_reads_hg19.bigWig 95.8 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF669GZO_gene_quantifications_hg19.tsv.gz 2.4 Mb (ftp)(http) TSV
GSM2400240_ENCFF676HVY_plus_strand_signal_of_unique_reads_GRCh38.bigWig 100.4 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF697ZVB_transcript_quantifications_hg19.tsv.gz 7.5 Mb (ftp)(http) TSV
GSM2400240_ENCFF724GUM_minus_strand_signal_of_all_reads_GRCh38.bigWig 105.7 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF780XKG_transcript_quantifications_GRCh38.tsv.gz 7.6 Mb (ftp)(http) TSV
GSM2400240_ENCFF790QBJ_plus_strand_signal_of_all_reads_hg19.bigWig 108.1 Mb (ftp)(http) BIGWIG
GSM2400240_ENCFF902LWD_plus_strand_signal_of_all_reads_GRCh38.bigWig 109.2 Mb (ftp)(http) BIGWIG
GSM2400240_ENCLB555AWY_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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