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Sample GSM605635 Query DataSets for GSM605635
Status Public on Oct 08, 2010
Title CSHL_RnaSeq_K562_nucleus_TAP-Only_shortTotal
Sample type SRA
Source name K562
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: 001N,002N,gen0151N,001N,002N
labexpid: LID10570,LID10569,LID10570,LID10569,crg-42
labversion: Produced by Hannon Lab,iIDR
readtype: 1x36
readtype description: Single 36 nt reads
replicate: 1,2
localization: nucleus
localization description: Large membrane bound part of cell containing chromosomes and the bulk of the cell's DNA
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: 001N
labexpid: LID10570
readtype: 1x36
readtype description: Single 36 nt reads
replicate: 1
Biomaterial provider ATCC
Growth protocol K562_protocol.pdf
Extracted molecule nuclear RNA
Extraction protocol
hg19: For extraction protocol details see:
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer IIx
Data processing
Submission date Oct 06, 2010
Last update date May 15, 2019
Contact name ENCODE DCC
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)
GSE24565 Small RNA-seq from ENCODE/Cold Spring Harbor Lab
SRA SRX130248
BioSample SAMN00829029
Named Annotation GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShortMinusRaw.bigWig
Named Annotation GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShortPlusRaw.bigWig
Named Annotation GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapMinusRawRep1.bigWig
Named Annotation GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapMinusRawRep2.bigWig
Named Annotation GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapPlusRawRep1.bigWig
Named Annotation GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapPlusRawRep2.bigWig

Supplementary file Size Download File type/resource
GSM605635_hg18_wgEncodeCshlShortRnaSeqAlignmentsK562NucleusShort.tagAlign.txt.gz 10.3 Mb (ftp)(http) TXT
GSM605635_hg18_wgEncodeCshlShortRnaSeqTransfragsK562NucleusShort.broadPeak.txt.gz 4.6 Mb (ftp)(http) TXT
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShortAln.bam 31.2 Mb (ftp)(http) BAM
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShortMinusRaw.bigWig 10.9 Mb (ftp)(http) BIGWIG
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShortPlusRaw.bigWig 10.9 Mb (ftp)(http) BIGWIG
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShortTransfrags.shortFrags.txt.gz 1.1 Mb (ftp)(http) TXT
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapContigs.bedRnaElements.gz 510.2 Kb (ftp)(http) BEDRNAELEMENTS
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapExonsGencV7.gtf.gz 1.4 Mb (ftp)(http) GTF
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapMinusRawRep1.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapMinusRawRep2.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapPlusRawRep1.bigWig 3.8 Mb (ftp)(http) BIGWIG
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapPlusRawRep2.bigWig 3.9 Mb (ftp)(http) BIGWIG
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapProtocolRep1.pdf.gz 285.3 Kb (ftp)(http) PDF
GSM605635_hg19_wgEncodeCshlShortRnaSeqK562NucleusShorttotalTapProtocolRep2.pdf.gz 285.3 Kb (ftp)(http) PDF
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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