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Sample GSM605631 Query DataSets for GSM605631
Status Public on Oct 08, 2010
Title Gingeras_K562_polysome
Sample type SRA
 
Source name K562
Organism Homo sapiens
Characteristics lab: CSHL
lab description: Gingeras - Cold Spring Harbor Laboratory
datatype: RnaSeq
datatype description: Sequencing analysis of RNA expression
cell: K562
cell organism: human
cell description: leukemia, "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." - ATCC
cell lineage: mesoderm
localization description: Strand of mRNA with ribosomes attached
protocol: TAP-Only
protocol description: This kind of library was made from RNA < 200 nucleotides that were pre-treated with Tobacco Acid Pyrophosphatase to remove any 5' caps that would preclude cloning. Hence, both capped and 5' monophosphate RNAs will be cloned.
rnaextract: shortTotal
rnaextract description: Rna shorter than 200 nt that has not been seperated based on Poly Adenalyation
biorep: gen0154P
labexpid: crg-44
labversion: Produced by Hannon Lab
Biomaterial provider ATCC
Growth protocol K562_protocol.pdf
Extracted molecule cytoplasmic RNA
Extraction protocol hg18: For extraction protocol details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=wgEncodeCshlShortRnaSeq
hg19: For extraction protocol details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlShortRnaSeq
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer
 
Data processing hg18: For data processing details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=wgEncodeCshlShortRnaSeq
hg19: For data processing details see: http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeCshlShortRnaSeq
 
Submission date Oct 06, 2010
Last update date Aug 26, 2014
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 GPL9052
Series (1)
GSE24565 Small RNA-seq from ENCODE/Cold Spring Harbor Lab
Relations
BioSample SAMN02195961
Named Annotation GSM605631_hg19_wgEncodeCshlShortRnaSeqK562PolysomeShortMinusRaw.bigWig
Named Annotation GSM605631_hg19_wgEncodeCshlShortRnaSeqK562PolysomeShortPlusRaw.bigWig

Supplementary file Size Download File type/resource
GSM605631_hg18_wgEncodeCshlShortRnaSeqAlignmentsK562PolysomeShort.tagAlign.txt.gz 3.2 Mb (ftp)(http) TXT
GSM605631_hg18_wgEncodeCshlShortRnaSeqTransfragsK562PolysomeShort.broadPeak.txt.gz 1.8 Mb (ftp)(http) TXT
GSM605631_hg19_wgEncodeCshlShortRnaSeqK562PolysomeShortAln.bam 4.4 Mb (ftp)(http) BAM
GSM605631_hg19_wgEncodeCshlShortRnaSeqK562PolysomeShortMinusRaw.bigWig 4.5 Mb (ftp)(http) BIGWIG
GSM605631_hg19_wgEncodeCshlShortRnaSeqK562PolysomeShortPlusRaw.bigWig 4.4 Mb (ftp)(http) BIGWIG
GSM605631_hg19_wgEncodeCshlShortRnaSeqK562PolysomeShortTransfrags.shortFrags.txt.gz 324.1 Kb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data provided as supplementary file
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