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ENCSR989VIY

ENCSR ENCODE
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eCLIP experiment on HepG2 against SRSF1

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

Relations

control:ENCSR499ZCU

Summary

eCLIP of SRSF1 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against SRSF1

Analysis

View Data Processing
Analysis page is available for ENCSR989VIY.

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: 3.2 GB
Assay: eCLIP
Target: SRSF1
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
ENCFF418ZXO ENCFF418ZXO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 347.0 MB link
ENCFF867TIG ENCFF867TIG.bam bam (alignments); assembly: GRCh38 alignments GRCh38 476.1 MB link
ENCFF832WNY ENCFF832WNY.bam bam (alignments); assembly: hg19 alignments hg19 350.2 MB link
ENCFF953OZR ENCFF953OZR.bam bam (alignments); assembly: hg19 alignments hg19 480.5 MB link
ENCFF214HOA ENCFF214HOA.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.2 MB link
ENCFF508DKJ ENCFF508DKJ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.9 MB link
ENCFF806LMS ENCFF806LMS.bed bed (peaks); assembly: GRCh38 peaks GRCh38 435.3 KB link
ENCFF934ANS ENCFF934ANS.bed bed (peaks); assembly: GRCh38 peaks GRCh38 40.5 KB link
ENCFF977LDY ENCFF977LDY.bed bed (peaks); assembly: GRCh38 peaks GRCh38 458.1 KB link
ENCFF105LFK ENCFF105LFK.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF179SCM ENCFF179SCM.bed bed (peaks); assembly: hg19 peaks hg19 2.1 MB link
ENCFF184TBM ENCFF184TBM.bed bed (peaks); assembly: hg19 peaks hg19 1.9 MB link
ENCFF530MIN ENCFF530MIN.bed bed (peaks); assembly: hg19 peaks hg19 40.2 KB link
ENCFF938QXN ENCFF938QXN.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF150ADU ENCFF150ADU.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 889.2 KB link
ENCFF476IEL ENCFF476IEL.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 907.7 KB link
ENCFF522HEA ENCFF522HEA.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 4.2 MB link
ENCFF937LBT ENCFF937LBT.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 3.9 MB link
ENCFF135SKU ENCFF135SKU.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.9 MB link
ENCFF207KLW ENCFF207KLW.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.4 MB link
ENCFF372JJP ENCFF372JJP.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.5 MB link
ENCFF499CNS ENCFF499CNS.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.8 MB link
ENCFF510BQT ENCFF510BQT.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.0 MB link
ENCFF759OGT ENCFF759OGT.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.2 MB link
ENCFF124CAG ENCFF124CAG.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 17.5 MB link
ENCFF570HZA ENCFF570HZA.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 21.7 MB link
ENCFF566KHV ENCFF566KHV.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 21.8 MB link
ENCFF745ZQD ENCFF745ZQD.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 17.6 MB link
ENCFF261GPN ENCFF261GPN.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 18.3 MB link
ENCFF327NVE ENCFF327NVE.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 22.3 MB link
ENCFF787KND ENCFF787KND.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 18.4 MB link
ENCFF837EJE ENCFF837EJE.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 22.5 MB link
ENCFF017IOI ENCFF017IOI.fastq fastq (reads) reads 392.1 MB link
ENCFF286FKW ENCFF286FKW.fastq fastq (reads) reads 318.7 MB link
ENCFF816JAS ENCFF816JAS.fastq fastq (reads) reads 294.7 MB link
ENCFF851FZF ENCFF851FZF.fastq fastq (reads) reads 423.7 MB link