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ENCSR356MSW

ENCSR ENCODE
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eCLIP experiment on K562 against SSB

Organism: Homo sapiens
Experiment Types:
eCLIP
Status: released
Contact: Gene Yeo, UCSD

Relations

control:ENCSR680HYD

Summary

eCLIP of SSB in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against SSB

Analysis

View Data Processing
Analysis page is available for ENCSR356MSW.

Dataset Citations (2)

Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins.
PMID 32252787 · 2020 · Genome biology
Eric L Van Nostrand, Gabriel A Pratt, Brian A Yee, Emily C Wheeler, Steven M Blue, Jasmine Mueller, Samuel S Park, Keri E Garcia, Chelsea Gelboin-Burkhart, Thai B Nguyen, Ines Rabano, Rebecca Stanton, Balaji Sundararaman, Ruth Wang, Xiang-Dong Fu, Brenton R Graveley, Gene W Yeo
A large-scale binding and functional map of human RNA-binding proteins.
PMID 32728246 · 2020 · Nature
Eric L Van Nostrand, Peter Freese, Gabriel A Pratt, Xiaofeng Wang, Xintao Wei, Rui Xiao, Steven M Blue, Jia-Yu Chen, Neal A L Cody, Daniel Dominguez, Sara Olson, Balaji Sundararaman, Lijun Zhan, Cassandra Bazile, Louis Philip Benoit Bouvrette, Julie Bergalet, Michael O Duff, Keri E Garcia, Chelsea Gelboin-Burkhart, Myles Hochman, Nicole J Lambert, Hairi Li, Michael P McGurk, Thai B Nguyen, Tsultrim Palden, Ines Rabano, Shashank Sathe, Rebecca Stanton, Amanda Su, Ruth Wang, Brian A Yee, Bing Zhou, Ashley L Louie, Stefan Aigner, Xiang-Dong Fu, Eric Lécuyer, Christopher B Burge, Brenton R Graveley, Gene W Yeo

ENCODE Metadata

Total file size: 2.5 GB
Assay: eCLIP
Target: SSB
Biosample: Homo sapiens K562
Files: 26
Unique ENC file IDs: 26
File Formats
bigWig (8) bed (6) bam (4) bigBed (4) fastq (4)
Output types (5)
peaks (10) alignments (4) minus strand signal of unique reads (4) plus strand signal of unique reads (4) reads (4)

Linked Publications (2)

Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins.
Genome biology · 2020
A large-scale binding and functional map of human RNA-binding proteins.
Nature · 2020

Data Files (26)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF205JFL ENCFF205JFL.bam bam (alignments); assembly: GRCh38 alignments GRCh38 156.6 MB link
ENCFF566TDO ENCFF566TDO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 177.0 MB link
ENCFF022SQB ENCFF022SQB.bam bam (alignments); assembly: hg19 alignments hg19 185.1 MB link
ENCFF659FQL ENCFF659FQL.bam bam (alignments); assembly: hg19 alignments hg19 161.2 MB link
ENCFF203AWR ENCFF203AWR.bed bed (peaks); assembly: GRCh38 peaks GRCh38 95.9 KB link
ENCFF328KJW ENCFF328KJW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 4.7 KB link
ENCFF342RHD ENCFF342RHD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 94.9 KB link
ENCFF324PNB ENCFF324PNB.bed bed (peaks); assembly: hg19 peaks hg19 4.2 KB link
ENCFF704NUD ENCFF704NUD.bed bed (peaks); assembly: hg19 peaks hg19 101.5 KB link
ENCFF871PJK ENCFF871PJK.bed bed (peaks); assembly: hg19 peaks hg19 99.0 KB link
ENCFF868DYD ENCFF868DYD.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 212.0 KB link
ENCFF903AED ENCFF903AED.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 214.9 KB link
ENCFF289TDT ENCFF289TDT.bigBed bigBed (peaks); assembly: hg19 peaks hg19 221.3 KB link
ENCFF516BAM ENCFF516BAM.bigBed bigBed (peaks); assembly: hg19 peaks hg19 216.3 KB link
ENCFF623ASO ENCFF623ASO.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 3.4 MB link
ENCFF732TUI ENCFF732TUI.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 3.6 MB link
ENCFF411IAE ENCFF411IAE.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 3.5 MB link
ENCFF468FTA ENCFF468FTA.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 3.7 MB link
ENCFF118XXW ENCFF118XXW.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 3.6 MB link
ENCFF464BIY ENCFF464BIY.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 3.8 MB link
ENCFF131CHH ENCFF131CHH.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 3.6 MB link
ENCFF805UMW ENCFF805UMW.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 3.9 MB link
ENCFF258RPS ENCFF258RPS.fastq fastq (reads) reads 419.0 MB link
ENCFF676BHH ENCFF676BHH.fastq fastq (reads) reads 489.2 MB link
ENCFF677KYJ ENCFF677KYJ.fastq fastq (reads) reads 504.3 MB link
ENCFF734LCT ENCFF734LCT.fastq fastq (reads) reads 414.5 MB link