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ENCSR923NKN

ENCSR ENCODE
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eCLIP experiment on K562 against DDX55

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

Relations

control:ENCSR180EJY

Summary

eCLIP of DDX55 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against DDX55

Analysis

View Data Processing
Analysis page is available for ENCSR923NKN.

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: 2.7 GB
Assay: eCLIP
Target: DDX55
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
ENCFF162LAM ENCFF162LAM.bam bam (alignments); assembly: GRCh38 alignments GRCh38 212.5 MB link
ENCFF553EAL ENCFF553EAL.bam bam (alignments); assembly: GRCh38 alignments GRCh38 207.5 MB link
ENCFF492LNE ENCFF492LNE.bam bam (alignments); assembly: hg19 alignments hg19 222.8 MB link
ENCFF826HOQ ENCFF826HOQ.bam bam (alignments); assembly: hg19 alignments hg19 219.9 MB link
ENCFF025OMD ENCFF025OMD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 319.2 KB link
ENCFF242QPD ENCFF242QPD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 213.6 KB link
ENCFF401XTL ENCFF401XTL.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.0 MB link
ENCFF411WKH ENCFF411WKH.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF462WAI ENCFF462WAI.bed bed (peaks); assembly: GRCh38 peaks GRCh38 24.5 KB link
ENCFF099PFC ENCFF099PFC.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF299UUC ENCFF299UUC.bed bed (peaks); assembly: hg19 peaks hg19 843.6 KB link
ENCFF432FVJ ENCFF432FVJ.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF456WXJ ENCFF456WXJ.bed bed (peaks); assembly: hg19 peaks hg19 611.8 KB link
ENCFF727XDH ENCFF727XDH.bed bed (peaks); assembly: hg19 peaks hg19 24.6 KB link
ENCFF367CBZ ENCFF367CBZ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.4 MB link
ENCFF641VGX ENCFF641VGX.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 568.1 KB link
ENCFF786BMN ENCFF786BMN.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 759.8 KB link
ENCFF809OXJ ENCFF809OXJ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.2 MB link
ENCFF002PZE ENCFF002PZE.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.7 MB link
ENCFF103HVH ENCFF103HVH.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.4 MB link
ENCFF236ERM ENCFF236ERM.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.0 MB link
ENCFF791CPI ENCFF791CPI.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF898EQT ENCFF898EQT.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.3 MB link
ENCFF935KUR ENCFF935KUR.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF017KKV ENCFF017KKV.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 11.4 MB link
ENCFF022MZM ENCFF022MZM.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 11.2 MB link
ENCFF054ENI ENCFF054ENI.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 11.5 MB link
ENCFF837TPV ENCFF837TPV.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 12.0 MB link
ENCFF790YXZ ENCFF790YXZ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.9 MB link
ENCFF802ALB ENCFF802ALB.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.7 MB link
ENCFF358GUT ENCFF358GUT.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 12.5 MB link
ENCFF986LSQ ENCFF986LSQ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 12.0 MB link
ENCFF438QZI ENCFF438QZI.fastq fastq (reads) reads 462.9 MB link
ENCFF667IWN ENCFF667IWN.fastq fastq (reads) reads 448.2 MB link
ENCFF782ZSQ ENCFF782ZSQ.fastq fastq (reads) reads 438.5 MB link
ENCFF992HTJ ENCFF992HTJ.fastq fastq (reads) reads 426.2 MB link