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ENCSR977OXG

ENCSR ENCODE
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eCLIP experiment on HepG2 against PRPF4

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

Relations

control:ENCSR367ACZ

Summary

eCLIP of PRPF4 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against PRPF4

Analysis

View Data Processing
Analysis page is available for ENCSR977OXG.

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: 3.9 GB
Assay: eCLIP
Target: PRPF4
Biosample: Homo sapiens HepG2
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
ENCFF080HMO ENCFF080HMO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 417.0 MB link
ENCFF404WOP ENCFF404WOP.bam bam (alignments); assembly: GRCh38 alignments GRCh38 580.2 MB link
ENCFF690QDN ENCFF690QDN.bam bam (alignments); assembly: hg19 alignments hg19 585.2 MB link
ENCFF714PLV ENCFF714PLV.bam bam (alignments); assembly: hg19 alignments hg19 433.8 MB link
ENCFF227EJF ENCFF227EJF.bed bed (peaks); assembly: GRCh38 peaks GRCh38 209.5 KB link
ENCFF331HUW ENCFF331HUW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.7 MB link
ENCFF882APR ENCFF882APR.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.0 MB link
ENCFF270OMS ENCFF270OMS.bed bed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF383UPL ENCFF383UPL.bed bed (peaks); assembly: hg19 peaks hg19 1.8 MB link
ENCFF485KCC ENCFF485KCC.bed bed (peaks); assembly: hg19 peaks hg19 207.5 KB link
ENCFF335COJ ENCFF335COJ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 4.0 MB link
ENCFF464UMO ENCFF464UMO.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 3.5 MB link
ENCFF535IJL ENCFF535IJL.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.5 MB link
ENCFF727YRW ENCFF727YRW.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.0 MB link
ENCFF224ZJZ ENCFF224ZJZ.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 24.8 MB link
ENCFF394GOQ ENCFF394GOQ.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 19.1 MB link
ENCFF344HRR ENCFF344HRR.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 25.1 MB link
ENCFF686FQE ENCFF686FQE.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 19.8 MB link
ENCFF292ZPN ENCFF292ZPN.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 25.4 MB link
ENCFF748DMH ENCFF748DMH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 19.8 MB link
ENCFF104NFC ENCFF104NFC.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 25.7 MB link
ENCFF700QBU ENCFF700QBU.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 20.5 MB link
ENCFF041DDW ENCFF041DDW.fastq fastq (reads) reads 501.2 MB link
ENCFF397TFH ENCFF397TFH.fastq fastq (reads) reads 447.8 MB link
ENCFF541DXC ENCFF541DXC.fastq fastq (reads) reads 441.4 MB link
ENCFF601DRB ENCFF601DRB.fastq fastq (reads) reads 392.1 MB link