← All datasets

ENCSR308YNT

ENCSR ENCODE
Export SRA CSV View on ENCODE

eCLIP experiment on K562 against PUM1

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

Relations

control:ENCSR832DWW

Summary

eCLIP of PUM1 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against PUM1

Analysis

View Data Processing
Analysis page is available for ENCSR308YNT.

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: 2.9 GB
Assay: eCLIP
Target: PUM1
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
ENCFF064COB ENCFF064COB.bam bam (alignments); assembly: GRCh38 alignments GRCh38 172.5 MB link
ENCFF583QFB ENCFF583QFB.bam bam (alignments); assembly: GRCh38 alignments GRCh38 181.4 MB link
ENCFF353WDF ENCFF353WDF.bam bam (alignments); assembly: hg19 alignments hg19 183.0 MB link
ENCFF463VDB ENCFF463VDB.bam bam (alignments); assembly: hg19 alignments hg19 188.0 MB link
ENCFF022IWU ENCFF022IWU.bed bed (peaks); assembly: GRCh38 peaks GRCh38 954.3 KB link
ENCFF094MQV ENCFF094MQV.bed bed (peaks); assembly: GRCh38 peaks GRCh38 61.0 KB link
ENCFF620UYD ENCFF620UYD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 919.0 KB link
ENCFF060XYT ENCFF060XYT.bed bed (peaks); assembly: hg19 peaks hg19 959.5 KB link
ENCFF933SBL ENCFF933SBL.bed bed (peaks); assembly: hg19 peaks hg19 934.8 KB link
ENCFF969AOQ ENCFF969AOQ.bed bed (peaks); assembly: hg19 peaks hg19 60.5 KB link
ENCFF143ACO ENCFF143ACO.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.9 MB link
ENCFF835JOX ENCFF835JOX.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.9 MB link
ENCFF311WSE ENCFF311WSE.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.9 MB link
ENCFF322IKX ENCFF322IKX.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF004UZD ENCFF004UZD.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 9.4 MB link
ENCFF868WSG ENCFF868WSG.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 9.0 MB link
ENCFF123VNX ENCFF123VNX.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 9.7 MB link
ENCFF504KGD ENCFF504KGD.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 9.3 MB link
ENCFF425EDT ENCFF425EDT.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 9.3 MB link
ENCFF802ZLH ENCFF802ZLH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 9.9 MB link
ENCFF183BXI ENCFF183BXI.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 10.1 MB link
ENCFF369TUQ ENCFF369TUQ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 9.7 MB link
ENCFF019LLG ENCFF019LLG.fastq fastq (reads) reads 600.2 MB link
ENCFF046QBX ENCFF046QBX.fastq fastq (reads) reads 460.7 MB link
ENCFF116YKN ENCFF116YKN.fastq fastq (reads) reads 529.9 MB link
ENCFF353ZJC ENCFF353ZJC.fastq fastq (reads) reads 516.1 MB link