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ENCSR916SRV

ENCSR ENCODE
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eCLIP experiment on HepG2 against TBRG4

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

Relations

control:ENCSR081WUU

Summary

eCLIP of TBRG4 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against TBRG4

Analysis

View Data Processing
Analysis page is available for ENCSR916SRV.

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: 2.3 GB
Assay: eCLIP
Target: TBRG4
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
ENCFF061HNX ENCFF061HNX.bam bam (alignments); assembly: GRCh38 alignments GRCh38 48.0 MB link
ENCFF189PHS ENCFF189PHS.bam bam (alignments); assembly: GRCh38 alignments GRCh38 60.6 MB link
ENCFF116ASC ENCFF116ASC.bam bam (alignments); assembly: hg19 alignments hg19 49.4 MB link
ENCFF925OBE ENCFF925OBE.bam bam (alignments); assembly: hg19 alignments hg19 63.4 MB link
ENCFF348TAB ENCFF348TAB.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.0 MB link
ENCFF539NWB ENCFF539NWB.bed bed (peaks); assembly: GRCh38 peaks GRCh38 443.0 KB link
ENCFF734ODX ENCFF734ODX.bed bed (peaks); assembly: GRCh38 peaks GRCh38 286.8 KB link
ENCFF736HGJ ENCFF736HGJ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 774.0 KB link
ENCFF869RUC ENCFF869RUC.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.4 KB link
ENCFF075EPZ ENCFF075EPZ.bed bed (peaks); assembly: hg19 peaks hg19 612.3 KB link
ENCFF304YLR ENCFF304YLR.bed bed (peaks); assembly: hg19 peaks hg19 2.4 KB link
ENCFF454ZHL ENCFF454ZHL.bed bed (peaks); assembly: hg19 peaks hg19 799.3 KB link
ENCFF472CCD ENCFF472CCD.bed bed (peaks); assembly: hg19 peaks hg19 1.0 MB link
ENCFF583RIE ENCFF583RIE.bed bed (peaks); assembly: hg19 peaks hg19 860.2 KB link
ENCFF506KNX ENCFF506KNX.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 773.8 KB link
ENCFF641QIN ENCFF641QIN.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 549.2 KB link
ENCFF895JLP ENCFF895JLP.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.4 MB link
ENCFF987EOP ENCFF987EOP.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.8 MB link
ENCFF691ZGO ENCFF691ZGO.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF773UHJ ENCFF773UHJ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 991.5 KB link
ENCFF805JUH ENCFF805JUH.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.8 MB link
ENCFF805POU ENCFF805POU.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.7 MB link
ENCFF979BSQ ENCFF979BSQ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.4 MB link
ENCFF985WIZ ENCFF985WIZ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.7 MB link
ENCFF261PBE ENCFF261PBE.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 2.4 MB link
ENCFF774EOF ENCFF774EOF.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 2.9 MB link
ENCFF075KBV ENCFF075KBV.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 2.4 MB link
ENCFF273POY ENCFF273POY.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 2.9 MB link
ENCFF711EEJ ENCFF711EEJ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 3.0 MB link
ENCFF721DQT ENCFF721DQT.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 2.5 MB link
ENCFF162ZNS ENCFF162ZNS.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 2.6 MB link
ENCFF406GRV ENCFF406GRV.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 3.1 MB link
ENCFF085PRU ENCFF085PRU.fastq fastq (reads) reads 469.5 MB link
ENCFF447XXS ENCFF447XXS.fastq fastq (reads) reads 494.6 MB link
ENCFF669MVS ENCFF669MVS.fastq fastq (reads) reads 537.7 MB link
ENCFF718RWU ENCFF718RWU.fastq fastq (reads) reads 572.7 MB link