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ENCSR154CSN

ENCSR ENCODE
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eCLIP experiment on K562 against DDX52

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

Relations

control:ENCSR864XNB

Summary

eCLIP of DDX52 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against DDX52

Analysis

View Data Processing
Analysis page is available for ENCSR154CSN.

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: 2.9 GB
Assay: eCLIP
Target: DDX52
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
ENCFF529NNX ENCFF529NNX.bam bam (alignments); assembly: GRCh38 alignments GRCh38 182.8 MB link
ENCFF729XQQ ENCFF729XQQ.bam bam (alignments); assembly: GRCh38 alignments GRCh38 184.7 MB link
ENCFF354DPT ENCFF354DPT.bam bam (alignments); assembly: hg19 alignments hg19 188.7 MB link
ENCFF698DHB ENCFF698DHB.bam bam (alignments); assembly: hg19 alignments hg19 196.4 MB link
ENCFF121SHB ENCFF121SHB.bed bed (peaks); assembly: GRCh38 peaks GRCh38 940.4 KB link
ENCFF198ULC ENCFF198ULC.bed bed (peaks); assembly: GRCh38 peaks GRCh38 25.5 KB link
ENCFF508LHH ENCFF508LHH.bed bed (peaks); assembly: GRCh38 peaks GRCh38 796.2 KB link
ENCFF343EUG ENCFF343EUG.bed bed (peaks); assembly: hg19 peaks hg19 958.2 KB link
ENCFF818KZJ ENCFF818KZJ.bed bed (peaks); assembly: hg19 peaks hg19 841.6 KB link
ENCFF888SME ENCFF888SME.bed bed (peaks); assembly: hg19 peaks hg19 25.7 KB link
ENCFF687HMY ENCFF687HMY.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.4 MB link
ENCFF918MTI ENCFF918MTI.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.6 MB link
ENCFF636YLN ENCFF636YLN.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF716JEM ENCFF716JEM.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.5 MB link
ENCFF059IMV ENCFF059IMV.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 10.9 MB link
ENCFF586YIZ ENCFF586YIZ.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 10.7 MB link
ENCFF851VGO ENCFF851VGO.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 11.3 MB link
ENCFF881DWJ ENCFF881DWJ.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 10.9 MB link
ENCFF036SXG ENCFF036SXG.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.3 MB link
ENCFF328GNH ENCFF328GNH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.4 MB link
ENCFF023FQH ENCFF023FQH.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 11.9 MB link
ENCFF535QEG ENCFF535QEG.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 11.7 MB link
ENCFF018JZA ENCFF018JZA.fastq fastq (reads) reads 621.0 MB link
ENCFF533ART ENCFF533ART.fastq fastq (reads) reads 441.9 MB link
ENCFF592QGC ENCFF592QGC.fastq fastq (reads) reads 457.4 MB link
ENCFF794QAR ENCFF794QAR.fastq fastq (reads) reads 594.9 MB link