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ENCSR240MVJ

ENCSR ENCODE
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eCLIP experiment on HepG2 against HNRNPU

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

Relations

control:ENCSR614VYQ

Summary

eCLIP of HNRNPU in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against HNRNPU

Analysis

View Data Processing
Analysis page is available for ENCSR240MVJ.

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: 3.7 GB
Assay: eCLIP
Target: HNRNPU
Biosample: Homo sapiens HepG2
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
ENCFF125EPG ENCFF125EPG.bam bam (alignments); assembly: GRCh38 alignments GRCh38 535.2 MB link
ENCFF587PLY ENCFF587PLY.bam bam (alignments); assembly: GRCh38 alignments GRCh38 556.7 MB link
ENCFF323IDR ENCFF323IDR.bam bam (alignments); assembly: hg19 alignments hg19 539.5 MB link
ENCFF979DWE ENCFF979DWE.bam bam (alignments); assembly: hg19 alignments hg19 551.0 MB link
ENCFF039XQD ENCFF039XQD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 7.2 KB link
ENCFF335HFQ ENCFF335HFQ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 135.7 KB link
ENCFF382XRS ENCFF382XRS.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.9 MB link
ENCFF621JPQ ENCFF621JPQ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.8 MB link
ENCFF957ECH ENCFF957ECH.bed bed (peaks); assembly: GRCh38 peaks GRCh38 142.1 KB link
ENCFF024FCB ENCFF024FCB.bed bed (peaks); assembly: hg19 peaks hg19 2.8 MB link
ENCFF388FMF ENCFF388FMF.bed bed (peaks); assembly: hg19 peaks hg19 404.0 KB link
ENCFF587FNW ENCFF587FNW.bed bed (peaks); assembly: hg19 peaks hg19 2.8 MB link
ENCFF654KQE ENCFF654KQE.bed bed (peaks); assembly: hg19 peaks hg19 393.9 KB link
ENCFF854NXI ENCFF854NXI.bed bed (peaks); assembly: hg19 peaks hg19 6.7 KB link
ENCFF021JPD ENCFF021JPD.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 5.3 MB link
ENCFF095IVK ENCFF095IVK.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 5.2 MB link
ENCFF399JKS ENCFF399JKS.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 361.2 KB link
ENCFF441KDR ENCFF441KDR.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 372.9 KB link
ENCFF247GMX ENCFF247GMX.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF322ERU ENCFF322ERU.bigBed bigBed (peaks); assembly: hg19 peaks hg19 793.6 KB link
ENCFF568MGU ENCFF568MGU.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.1 MB link
ENCFF624CVO ENCFF624CVO.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF729IOJ ENCFF729IOJ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 811.0 KB link
ENCFF861LOK ENCFF861LOK.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.2 MB link
ENCFF600ZSJ ENCFF600ZSJ.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 28.8 MB link
ENCFF907BAD ENCFF907BAD.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 29.4 MB link
ENCFF040QAV ENCFF040QAV.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 29.2 MB link
ENCFF751WTI ENCFF751WTI.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 28.9 MB link
ENCFF053XYY ENCFF053XYY.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 30.3 MB link
ENCFF958UYK ENCFF958UYK.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 30.5 MB link
ENCFF677NVJ ENCFF677NVJ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 30.3 MB link
ENCFF937XOB ENCFF937XOB.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 30.4 MB link
ENCFF195JRZ ENCFF195JRZ.fastq fastq (reads) reads 308.9 MB link
ENCFF383SFO ENCFF383SFO.fastq fastq (reads) reads 352.3 MB link
ENCFF739PWI ENCFF739PWI.fastq fastq (reads) reads 388.5 MB link
ENCFF942SSU ENCFF942SSU.fastq fastq (reads) reads 320.0 MB link