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ENCSR580MFX

ENCSR ENCODE
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eCLIP experiment on HepG2 against SUPV3L1

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

Relations

control:ENCSR376KLZ

Summary

eCLIP of SUPV3L1 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against SUPV3L1

Analysis

View Data Processing
Analysis page is available for ENCSR580MFX.

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: 2.7 GB
Assay: eCLIP
Target: SUPV3L1
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
ENCFF853HTH ENCFF853HTH.bam bam (alignments); assembly: GRCh38 alignments GRCh38 208.8 MB link
ENCFF941QMM ENCFF941QMM.bam bam (alignments); assembly: GRCh38 alignments GRCh38 124.4 MB link
ENCFF429MXX ENCFF429MXX.bam bam (alignments); assembly: hg19 alignments hg19 215.6 MB link
ENCFF816LYN ENCFF816LYN.bam bam (alignments); assembly: hg19 alignments hg19 131.4 MB link
ENCFF186QJV ENCFF186QJV.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.1 MB link
ENCFF523XIE ENCFF523XIE.bed bed (peaks); assembly: GRCh38 peaks GRCh38 146.4 KB link
ENCFF579FWN ENCFF579FWN.bed bed (peaks); assembly: GRCh38 peaks GRCh38 775.8 KB link
ENCFF958YAU ENCFF958YAU.bed bed (peaks); assembly: GRCh38 peaks GRCh38 137.4 KB link
ENCFF999ZAW ENCFF999ZAW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 6.1 KB link
ENCFF089NRQ ENCFF089NRQ.bed bed (peaks); assembly: hg19 peaks hg19 808.5 KB link
ENCFF576FDV ENCFF576FDV.bed bed (peaks); assembly: hg19 peaks hg19 449.9 KB link
ENCFF758EWI ENCFF758EWI.bed bed (peaks); assembly: hg19 peaks hg19 5.8 KB link
ENCFF769YOB ENCFF769YOB.bed bed (peaks); assembly: hg19 peaks hg19 434.9 KB link
ENCFF882KLS ENCFF882KLS.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF029CXE ENCFF029CXE.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.4 MB link
ENCFF204ENL ENCFF204ENL.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 320.6 KB link
ENCFF819APR ENCFF819APR.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.8 MB link
ENCFF956RXA ENCFF956RXA.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 337.7 KB link
ENCFF174JYZ ENCFF174JYZ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.9 MB link
ENCFF269FJC ENCFF269FJC.bigBed bigBed (peaks); assembly: hg19 peaks hg19 914.0 KB link
ENCFF435HVG ENCFF435HVG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.4 MB link
ENCFF939TVS ENCFF939TVS.bigBed bigBed (peaks); assembly: hg19 peaks hg19 905.9 KB link
ENCFF513URC ENCFF513URC.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 5.6 MB link
ENCFF964HSA ENCFF964HSA.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 11.3 MB link
ENCFF590AHU ENCFF590AHU.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 5.8 MB link
ENCFF591UBR ENCFF591UBR.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 11.7 MB link
ENCFF494KCY ENCFF494KCY.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 5.7 MB link
ENCFF553BGD ENCFF553BGD.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.5 MB link
ENCFF275EAZ ENCFF275EAZ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 11.9 MB link
ENCFF546OJL ENCFF546OJL.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 5.9 MB link
ENCFF300RXV ENCFF300RXV.fastq fastq (reads) reads 542.9 MB link
ENCFF349HRX ENCFF349HRX.fastq fastq (reads) reads 547.5 MB link
ENCFF728OEM ENCFF728OEM.fastq fastq (reads) reads 435.3 MB link
ENCFF956CPQ ENCFF956CPQ.fastq fastq (reads) reads 434.0 MB link