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ENCSR256CHX

ENCSR ENCODE
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eCLIP experiment on HepG2 against PCBP1

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

Relations

control:ENCSR825FTY

Summary

eCLIP of PCBP1 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against PCBP1

Analysis

View Data Processing
Analysis page is available for ENCSR256CHX.

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: 1.8 GB
Assay: eCLIP
Target: PCBP1
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
ENCFF138HUE ENCFF138HUE.bam bam (alignments); assembly: GRCh38 alignments GRCh38 114.7 MB link
ENCFF933ESS ENCFF933ESS.bam bam (alignments); assembly: GRCh38 alignments GRCh38 67.3 MB link
ENCFF041ULU ENCFF041ULU.bam bam (alignments); assembly: hg19 alignments hg19 73.0 MB link
ENCFF547HEQ ENCFF547HEQ.bam bam (alignments); assembly: hg19 alignments hg19 119.4 MB link
ENCFF098REE ENCFF098REE.bed bed (peaks); assembly: GRCh38 peaks GRCh38 21.6 KB link
ENCFF502OYV ENCFF502OYV.bed bed (peaks); assembly: GRCh38 peaks GRCh38 431.6 KB link
ENCFF914VUW ENCFF914VUW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 253.2 KB link
ENCFF108TOJ ENCFF108TOJ.bed bed (peaks); assembly: hg19 peaks hg19 22.0 KB link
ENCFF252BJN ENCFF252BJN.bed bed (peaks); assembly: hg19 peaks hg19 273.4 KB link
ENCFF940CJE ENCFF940CJE.bed bed (peaks); assembly: hg19 peaks hg19 442.6 KB link
ENCFF163UHG ENCFF163UHG.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 829.3 KB link
ENCFF628HQO ENCFF628HQO.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 543.2 KB link
ENCFF121EWJ ENCFF121EWJ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 850.1 KB link
ENCFF208ZBZ ENCFF208ZBZ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 577.8 KB link
ENCFF336LKZ ENCFF336LKZ.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 3.3 MB link
ENCFF512ADR ENCFF512ADR.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 4.9 MB link
ENCFF144ZBH ENCFF144ZBH.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 5.0 MB link
ENCFF679TMH ENCFF679TMH.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 3.5 MB link
ENCFF423IFM ENCFF423IFM.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 3.4 MB link
ENCFF469KBI ENCFF469KBI.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 5.0 MB link
ENCFF737KHA ENCFF737KHA.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 5.1 MB link
ENCFF964VGV ENCFF964VGV.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 3.6 MB link
ENCFF125HTS ENCFF125HTS.fastq fastq (reads) reads 362.4 MB link
ENCFF627OUC ENCFF627OUC.fastq fastq (reads) reads 406.3 MB link
ENCFF725CBA ENCFF725CBA.fastq fastq (reads) reads 331.8 MB link
ENCFF973FFS ENCFF973FFS.fastq fastq (reads) reads 361.3 MB link