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Sample GSM973674 Query DataSets for GSM973674
Status Public on Jul 26, 2012
Title CSHL_RnaSeq_A549_cell_CIP-TAP_shortTotal
Sample type SRA
 
Source name A549
Organism Homo sapiens
Characteristics datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
rnaextract: shortTotal
rnaextract description: Rna shorter than 200 nt that has not been seperated based on Poly Adenalyation
biorep: 087WC,088WC,087WC,088WC
labexpid: LID46098,LID46099,LID46098,LID46099
labversion: iIDR
readtype: 1x101
readtype description: Single 101 nt reads
replicate: 3,4
localization: cell
localization description: Whole cell
protocol: CIP-TAP
protocol description: This kind of library was made from RNA < 200 nucleotides that was pre-treated sequentially with Calf Intestinal Alkaline Phosphatase followed by Tobacco Acid Pyrophosphatase. Hence, it will be enriched for capped RNAs.
rnaextract: shortTotal
rnaextract description: Rna shorter than 200 nt that has not been seperated based on Poly Adenalyation
biorep: 087WC,088WC
labexpid: LID46098,LID46099
labversion: iIDR
readtype: 1x101
readtype description: Single 101 nt reads
Biomaterial provider ATCC
Extracted molecule total RNA
Extraction protocol http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlShortRnaSeq
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlShortRnaSeq
 
Submission date Jul 25, 2012
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)
GSE24565 Small RNA-seq from ENCODE/Cold Spring Harbor Lab
Relations
SRA SRX171083
BioSample SAMN01095672
Named Annotation GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapMinusRep3.bigWig
Named Annotation GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapMinusRep4.bigWig
Named Annotation GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapPlusRep3.bigWig
Named Annotation GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapPlusRep4.bigWig

Supplementary file Size Download File type/resource
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellCiptapContigs.bedRnaElements.gz 1.1 Mb (ftp)(http) BEDRNAELEMENTS
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellCiptapExonsGencV10.gtf.gz 916.1 Kb (ftp)(http) GTF
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellCiptapProtocolRep3.pdf.gz 479.9 Kb (ftp)(http) PDF
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellCiptapProtocolRep4.pdf.gz 474.7 Kb (ftp)(http) PDF
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapMinusRep3.bigWig 13.8 Mb (ftp)(http) BIGWIG
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapMinusRep4.bigWig 7.7 Mb (ftp)(http) BIGWIG
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapPlusRep3.bigWig 13.8 Mb (ftp)(http) BIGWIG
GSM973674_hg19_wgEncodeCshlShortRnaSeqA549CellShorttotalCiptapPlusRep4.bigWig 7.7 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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