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ENCSR958FKZ

ENCSR ENCODE
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eCLIP experiment on K562 against PABPC4

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

Relations

control:ENCSR192TPA

Summary

eCLIP of PABPC4 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against PABPC4

Analysis

View Data Processing
Analysis page is available for ENCSR958FKZ.

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: 2.0 GB
Assay: eCLIP
Target: PABPC4
Biosample: Homo sapiens K562
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
ENCFF551NSA ENCFF551NSA.bam bam (alignments); assembly: GRCh38 alignments GRCh38 265.3 MB link
ENCFF692YDC ENCFF692YDC.bam bam (alignments); assembly: GRCh38 alignments GRCh38 60.7 MB link
ENCFF047TLS ENCFF047TLS.bam bam (alignments); assembly: hg19 alignments hg19 280.6 MB link
ENCFF953EUQ ENCFF953EUQ.bam bam (alignments); assembly: hg19 alignments hg19 62.3 MB link
ENCFF452MJL ENCFF452MJL.bed bed (peaks); assembly: GRCh38 peaks GRCh38 137.5 KB link
ENCFF559XNJ ENCFF559XNJ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 560.3 KB link
ENCFF787HQF ENCFF787HQF.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF463ZSJ ENCFF463ZSJ.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF772SPP ENCFF772SPP.bed bed (peaks); assembly: hg19 peaks hg19 565.4 KB link
ENCFF956PEQ ENCFF956PEQ.bed bed (peaks); assembly: hg19 peaks hg19 139.6 KB link
ENCFF192JKW ENCFF192JKW.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF778LEH ENCFF778LEH.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.8 MB link
ENCFF363FQC ENCFF363FQC.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.8 MB link
ENCFF577BEF ENCFF577BEF.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF745TLR ENCFF745TLR.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 3.9 MB link
ENCFF990TDV ENCFF990TDV.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 13.3 MB link
ENCFF006AVT ENCFF006AVT.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 13.8 MB link
ENCFF707JVN ENCFF707JVN.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 4.0 MB link
ENCFF446CWO ENCFF446CWO.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 4.0 MB link
ENCFF652YFU ENCFF652YFU.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 13.6 MB link
ENCFF087JUK ENCFF087JUK.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 14.2 MB link
ENCFF513VQU ENCFF513VQU.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 4.1 MB link
ENCFF440SQF ENCFF440SQF.fastq fastq (reads) reads 346.2 MB link
ENCFF478YTR ENCFF478YTR.fastq fastq (reads) reads 287.6 MB link
ENCFF484RUL ENCFF484RUL.fastq fastq (reads) reads 284.5 MB link
ENCFF662IWF ENCFF662IWF.fastq fastq (reads) reads 341.8 MB link