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ENCSR721HPX

ENCSR ENCODE
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eCLIP experiment on HepG2 against G3BP1

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

Relations

control:ENCSR907EBB

Summary

eCLIP of G3BP1 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against G3BP1

Analysis

View Data Processing
Analysis page is available for ENCSR721HPX.

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: 3.5 GB
Assay: eCLIP
Target: G3BP1
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
ENCFF288LEG ENCFF288LEG.bam bam (alignments); assembly: GRCh38 alignments GRCh38 292.3 MB link
ENCFF395MJO ENCFF395MJO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 235.9 MB link
ENCFF340DMM ENCFF340DMM.bam bam (alignments); assembly: hg19 alignments hg19 304.4 MB link
ENCFF564AEK ENCFF564AEK.bam bam (alignments); assembly: hg19 alignments hg19 249.0 MB link
ENCFF205KCK ENCFF205KCK.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.3 MB link
ENCFF506GKX ENCFF506GKX.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF899HHP ENCFF899HHP.bed bed (peaks); assembly: GRCh38 peaks GRCh38 143.6 KB link
ENCFF165JYX ENCFF165JYX.bed bed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF934JFZ ENCFF934JFZ.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF963CVD ENCFF963CVD.bed bed (peaks); assembly: hg19 peaks hg19 145.2 KB link
ENCFF751SPV ENCFF751SPV.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.4 MB link
ENCFF900DXH ENCFF900DXH.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.6 MB link
ENCFF575JDL ENCFF575JDL.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.4 MB link
ENCFF792NCE ENCFF792NCE.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.6 MB link
ENCFF015CYW ENCFF015CYW.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 12.0 MB link
ENCFF180AUP ENCFF180AUP.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 13.6 MB link
ENCFF042TNT ENCFF042TNT.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 14.0 MB link
ENCFF482DGA ENCFF482DGA.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 12.4 MB link
ENCFF074GKB ENCFF074GKB.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 12.1 MB link
ENCFF234EDT ENCFF234EDT.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 13.9 MB link
ENCFF052VSF ENCFF052VSF.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 14.3 MB link
ENCFF705PQT ENCFF705PQT.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 12.5 MB link
ENCFF065SWB ENCFF065SWB.fastq fastq (reads) reads 729.4 MB link
ENCFF342WGS ENCFF342WGS.fastq fastq (reads) reads 558.1 MB link
ENCFF486NTL ENCFF486NTL.fastq fastq (reads) reads 640.4 MB link
ENCFF557CZU ENCFF557CZU.fastq fastq (reads) reads 500.3 MB link