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ENCSR506UPY

ENCSR ENCODE
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eCLIP experiment on HepG2 against SUGP2

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

Relations

control:ENCSR895TTM

Summary

eCLIP of SUGP2 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against SUGP2

Analysis

View Data Processing
Analysis page is available for ENCSR506UPY.

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: 6.9 GB
Assay: eCLIP
Target: SUGP2
Biosample: Homo sapiens HepG2
Files: 34
Unique ENC file IDs: 34
File Formats
bed (10) bigBed (8) bigWig (8) bam (4) fastq (4)
Output types (5)
peaks (18) 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 (34)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF600AXE ENCFF600AXE.bam bam (alignments); assembly: GRCh38 alignments GRCh38 961.7 MB link
ENCFF699QMT ENCFF699QMT.bam bam (alignments); assembly: GRCh38 alignments GRCh38 854.4 MB link
ENCFF265BFS ENCFF265BFS.bam bam (alignments); assembly: hg19 alignments hg19 995.5 MB link
ENCFF556QBW ENCFF556QBW.bam bam (alignments); assembly: hg19 alignments hg19 895.9 MB link
ENCFF094XXN ENCFF094XXN.bed bed (peaks); assembly: GRCh38 peaks GRCh38 189.2 KB link
ENCFF104AQW ENCFF104AQW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 214.9 KB link
ENCFF191XRG ENCFF191XRG.bed bed (peaks); assembly: GRCh38 peaks GRCh38 305.1 KB link
ENCFF572VUS ENCFF572VUS.bed bed (peaks); assembly: GRCh38 peaks GRCh38 4.0 MB link
ENCFF935UME ENCFF935UME.bed bed (peaks); assembly: GRCh38 peaks GRCh38 4.4 MB link
ENCFF021YLI ENCFF021YLI.bed bed (peaks); assembly: hg19 peaks hg19 648.5 KB link
ENCFF187DUQ ENCFF187DUQ.bed bed (peaks); assembly: hg19 peaks hg19 4.0 MB link
ENCFF523CEP ENCFF523CEP.bed bed (peaks); assembly: hg19 peaks hg19 581.0 KB link
ENCFF699DTX ENCFF699DTX.bed bed (peaks); assembly: hg19 peaks hg19 4.4 MB link
ENCFF764MPF ENCFF764MPF.bed bed (peaks); assembly: hg19 peaks hg19 308.5 KB link
ENCFF126YYJ ENCFF126YYJ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 511.8 KB link
ENCFF471YGE ENCFF471YGE.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 7.1 MB link
ENCFF637DYJ ENCFF637DYJ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 7.8 MB link
ENCFF720UIL ENCFF720UIL.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 553.2 KB link
ENCFF153AHV ENCFF153AHV.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF227NBE ENCFF227NBE.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF277PGA ENCFF277PGA.bigBed bigBed (peaks); assembly: hg19 peaks hg19 7.8 MB link
ENCFF990PJC ENCFF990PJC.bigBed bigBed (peaks); assembly: hg19 peaks hg19 7.2 MB link
ENCFF475UFB ENCFF475UFB.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 45.5 MB link
ENCFF479OSQ ENCFF479OSQ.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 41.7 MB link
ENCFF013JLF ENCFF013JLF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 46.6 MB link
ENCFF848JIF ENCFF848JIF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 43.1 MB link
ENCFF319BFO ENCFF319BFO.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 42.7 MB link
ENCFF781IEY ENCFF781IEY.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 46.6 MB link
ENCFF557XZB ENCFF557XZB.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 44.3 MB link
ENCFF956IWG ENCFF956IWG.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 47.9 MB link
ENCFF179OBF ENCFF179OBF.fastq fastq (reads) reads 711.4 MB link
ENCFF358YCG ENCFF358YCG.fastq fastq (reads) reads 717.1 MB link
ENCFF451TDR ENCFF451TDR.fastq fastq (reads) reads 761.4 MB link
ENCFF873UBU ENCFF873UBU.fastq fastq (reads) reads 771.3 MB link