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ENCSR576SHT

ENCSR ENCODE
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eCLIP experiment on K562 against DDX42

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

Relations

control:ENCSR200SAU

Summary

eCLIP of DDX42 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against DDX42

Analysis

View Data Processing
Analysis page is available for ENCSR576SHT.

Dataset Citations (3)

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
PubMed citation (PMID 32728046)

ENCODE Metadata

Total file size: 1.7 GB
Assay: eCLIP
Target: DDX42
Biosample: Homo sapiens K562
Files: 36
Unique ENC file IDs: 36
File Formats
bed (10) bigBed (10) bigWig (8) bam (4) fastq (4)
Output types (5)
peaks (20) 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 (36)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF106FPU ENCFF106FPU.bam bam (alignments); assembly: GRCh38 alignments GRCh38 157.8 MB link
ENCFF220NDA ENCFF220NDA.bam bam (alignments); assembly: GRCh38 alignments GRCh38 134.6 MB link
ENCFF337FDR ENCFF337FDR.bam bam (alignments); assembly: hg19 alignments hg19 159.6 MB link
ENCFF920GHG ENCFF920GHG.bam bam (alignments); assembly: hg19 alignments hg19 136.3 MB link
ENCFF028IXB ENCFF028IXB.bed bed (peaks); assembly: GRCh38 peaks GRCh38 739.0 KB link
ENCFF248XLD ENCFF248XLD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 139.0 KB link
ENCFF399GGH ENCFF399GGH.bed bed (peaks); assembly: GRCh38 peaks GRCh38 3.0 KB link
ENCFF404VAY ENCFF404VAY.bed bed (peaks); assembly: GRCh38 peaks GRCh38 134.1 KB link
ENCFF981ZPT ENCFF981ZPT.bed bed (peaks); assembly: GRCh38 peaks GRCh38 922.0 KB link
ENCFF367VYJ ENCFF367VYJ.bed bed (peaks); assembly: hg19 peaks hg19 2.8 KB link
ENCFF393UZS ENCFF393UZS.bed bed (peaks); assembly: hg19 peaks hg19 425.1 KB link
ENCFF486JIC ENCFF486JIC.bed bed (peaks); assembly: hg19 peaks hg19 387.3 KB link
ENCFF615THP ENCFF615THP.bed bed (peaks); assembly: hg19 peaks hg19 742.5 KB link
ENCFF874RBP ENCFF874RBP.bed bed (peaks); assembly: hg19 peaks hg19 926.7 KB link
ENCFF535IDF ENCFF535IDF.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 369.1 KB link
ENCFF821OQU ENCFF821OQU.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.3 MB link
ENCFF868JHW ENCFF868JHW.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.6 MB link
ENCFF928GVI ENCFF928GVI.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 377.1 KB link
ENCFF172BNP ENCFF172BNP.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF185UNK ENCFF185UNK.bigBed bigBed (peaks); assembly: hg19 peaks hg19 804.1 KB link
ENCFF374EMH ENCFF374EMH.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.5 MB link
ENCFF411XIQ ENCFF411XIQ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF452WPL ENCFF452WPL.bigBed bigBed (peaks); assembly: hg19 peaks hg19 864.0 KB link
ENCFF941XGK ENCFF941XGK.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF193HOO ENCFF193HOO.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 9.9 MB link
ENCFF890IGS ENCFF890IGS.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 6.6 MB link
ENCFF155RZO ENCFF155RZO.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 6.6 MB link
ENCFF441HHV ENCFF441HHV.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 10.1 MB link
ENCFF008GNX ENCFF008GNX.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 10.5 MB link
ENCFF755FOC ENCFF755FOC.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 6.9 MB link
ENCFF847LWE ENCFF847LWE.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 7.0 MB link
ENCFF932WUK ENCFF932WUK.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 10.6 MB link
ENCFF032CWK ENCFF032CWK.fastq fastq (reads) reads 303.1 MB link
ENCFF092NLI ENCFF092NLI.fastq fastq (reads) reads 263.6 MB link
ENCFF196YUL ENCFF196YUL.fastq fastq (reads) reads 244.5 MB link
ENCFF450GCJ ENCFF450GCJ.fastq fastq (reads) reads 282.7 MB link