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ENCSR365NVO

ENCSR ENCODE
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eCLIP experiment on K562 against TRA2A

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

Relations

control:ENCSR619RLC

Summary

eCLIP of TRA2A in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against TRA2A

Analysis

View Data Processing
Analysis page is available for ENCSR365NVO.

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: 2.2 GB
Assay: eCLIP
Target: TRA2A
Biosample: Homo sapiens K562
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
ENCFF159MVB ENCFF159MVB.bam bam (alignments); assembly: GRCh38 alignments GRCh38 224.1 MB link
ENCFF846XXE ENCFF846XXE.bam bam (alignments); assembly: GRCh38 alignments GRCh38 151.5 MB link
ENCFF059QDI ENCFF059QDI.bam bam (alignments); assembly: hg19 alignments hg19 153.5 MB link
ENCFF222FBC ENCFF222FBC.bam bam (alignments); assembly: hg19 alignments hg19 226.3 MB link
ENCFF149BAF ENCFF149BAF.bed bed (peaks); assembly: GRCh38 peaks GRCh38 173.2 KB link
ENCFF402AIE ENCFF402AIE.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.1 MB link
ENCFF512DWR ENCFF512DWR.bed bed (peaks); assembly: GRCh38 peaks GRCh38 278.6 KB link
ENCFF618ZPP ENCFF618ZPP.bed bed (peaks); assembly: GRCh38 peaks GRCh38 732.3 KB link
ENCFF726PFJ ENCFF726PFJ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 38.8 KB link
ENCFF004IIT ENCFF004IIT.bed bed (peaks); assembly: hg19 peaks hg19 38.6 KB link
ENCFF059GSO ENCFF059GSO.bed bed (peaks); assembly: hg19 peaks hg19 778.8 KB link
ENCFF257VRQ ENCFF257VRQ.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF744EQP ENCFF744EQP.bed bed (peaks); assembly: hg19 peaks hg19 728.7 KB link
ENCFF955OEB ENCFF955OEB.bed bed (peaks); assembly: hg19 peaks hg19 481.9 KB link
ENCFF086AMC ENCFF086AMC.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.3 MB link
ENCFF347QRR ENCFF347QRR.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 592.0 KB link
ENCFF658CJG ENCFF658CJG.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.3 MB link
ENCFF741JAB ENCFF741JAB.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 426.9 KB link
ENCFF249CGM ENCFF249CGM.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF562FJN ENCFF562FJN.bigBed bigBed (peaks); assembly: hg19 peaks hg19 925.8 KB link
ENCFF661WET ENCFF661WET.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF669QSB ENCFF669QSB.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.3 MB link
ENCFF731SOH ENCFF731SOH.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.8 MB link
ENCFF968HCI ENCFF968HCI.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.1 MB link
ENCFF801MSL ENCFF801MSL.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 12.9 MB link
ENCFF901JTH ENCFF901JTH.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 7.4 MB link
ENCFF079XEB ENCFF079XEB.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 13.0 MB link
ENCFF608LUC ENCFF608LUC.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 7.4 MB link
ENCFF127SBH ENCFF127SBH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 13.4 MB link
ENCFF349CWI ENCFF349CWI.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 7.7 MB link
ENCFF830EEK ENCFF830EEK.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 13.5 MB link
ENCFF914PEF ENCFF914PEF.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 7.8 MB link
ENCFF116QDH ENCFF116QDH.fastq fastq (reads) reads 409.8 MB link
ENCFF349ZAH ENCFF349ZAH.fastq fastq (reads) reads 314.0 MB link
ENCFF795IGM ENCFF795IGM.fastq fastq (reads) reads 291.6 MB link
ENCFF917GQR ENCFF917GQR.fastq fastq (reads) reads 382.4 MB link