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ENCSR352STY

ENCSR ENCODE
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eCLIP experiment on HepG2 against SSB

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

Relations

control:ENCSR145ZKN

Summary

eCLIP of SSB in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against SSB

Analysis

View Data Processing
Analysis page is available for ENCSR352STY.

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: 6.5 GB
Assay: eCLIP
Target: SSB
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
ENCFF264DBW ENCFF264DBW.bam bam (alignments); assembly: GRCh38 alignments GRCh38 517.1 MB link
ENCFF343FAD ENCFF343FAD.bam bam (alignments); assembly: GRCh38 alignments GRCh38 417.4 MB link
ENCFF746AWW ENCFF746AWW.bam bam (alignments); assembly: hg19 alignments hg19 541.8 MB link
ENCFF856EEK ENCFF856EEK.bam bam (alignments); assembly: hg19 alignments hg19 442.0 MB link
ENCFF097KHT ENCFF097KHT.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.0 MB link
ENCFF697NZQ ENCFF697NZQ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 851.9 KB link
ENCFF848JWA ENCFF848JWA.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.3 KB link
ENCFF565RQI ENCFF565RQI.bed bed (peaks); assembly: hg19 peaks hg19 2.3 KB link
ENCFF746RLH ENCFF746RLH.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF828WCR ENCFF828WCR.bed bed (peaks); assembly: hg19 peaks hg19 869.4 KB link
ENCFF689JPE ENCFF689JPE.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.8 MB link
ENCFF889CTF ENCFF889CTF.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.5 MB link
ENCFF571EFF ENCFF571EFF.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.5 MB link
ENCFF763VGI ENCFF763VGI.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.8 MB link
ENCFF073JBT ENCFF073JBT.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 15.6 MB link
ENCFF242WIV ENCFF242WIV.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 19.9 MB link
ENCFF329OZW ENCFF329OZW.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 20.4 MB link
ENCFF383JPP ENCFF383JPP.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 16.3 MB link
ENCFF079NYX ENCFF079NYX.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 20.6 MB link
ENCFF681BGR ENCFF681BGR.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 16.0 MB link
ENCFF575EPO ENCFF575EPO.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 21.2 MB link
ENCFF934BKN ENCFF934BKN.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 16.7 MB link
ENCFF120ZCK ENCFF120ZCK.fastq fastq (reads) reads 1.2 GB link
ENCFF432KDL ENCFF432KDL.fastq fastq (reads) reads 1.3 GB link
ENCFF527CYH ENCFF527CYH.fastq fastq (reads) reads 974.0 MB link
ENCFF916XEL ENCFF916XEL.fastq fastq (reads) reads 1.1 GB link