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ENCSR001KKZ

ENCSR ENCODE
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eCLIP experiment on K562 against PHF6

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

Relations

control:ENCSR103HDM

Summary

eCLIP of PHF6 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against PHF6

Analysis

View Data Processing
Analysis page is available for ENCSR001KKZ.

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: PHF6
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
ENCFF282OCB ENCFF282OCB.bam bam (alignments); assembly: GRCh38 alignments GRCh38 111.6 MB link
ENCFF885ZMH ENCFF885ZMH.bam bam (alignments); assembly: GRCh38 alignments GRCh38 89.4 MB link
ENCFF153JFX ENCFF153JFX.bam bam (alignments); assembly: hg19 alignments hg19 94.6 MB link
ENCFF213NMK ENCFF213NMK.bam bam (alignments); assembly: hg19 alignments hg19 114.4 MB link
ENCFF075JQB ENCFF075JQB.bed bed (peaks); assembly: GRCh38 peaks GRCh38 395.1 KB link
ENCFF588ITW ENCFF588ITW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 15.7 KB link
ENCFF957JDY ENCFF957JDY.bed bed (peaks); assembly: GRCh38 peaks GRCh38 481.2 KB link
ENCFF016IHL ENCFF016IHL.bed bed (peaks); assembly: hg19 peaks hg19 489.1 KB link
ENCFF958EFT ENCFF958EFT.bed bed (peaks); assembly: hg19 peaks hg19 15.5 KB link
ENCFF967JAT ENCFF967JAT.bed bed (peaks); assembly: hg19 peaks hg19 421.0 KB link
ENCFF097AME ENCFF097AME.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 895.2 KB link
ENCFF543URO ENCFF543URO.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 773.8 KB link
ENCFF471BTA ENCFF471BTA.bigBed bigBed (peaks); assembly: hg19 peaks hg19 813.5 KB link
ENCFF941KTS ENCFF941KTS.bigBed bigBed (peaks); assembly: hg19 peaks hg19 906.7 KB link
ENCFF264YFE ENCFF264YFE.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 5.3 MB link
ENCFF719WMB ENCFF719WMB.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 4.5 MB link
ENCFF667OVG ENCFF667OVG.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 4.7 MB link
ENCFF972SRF ENCFF972SRF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 5.4 MB link
ENCFF550QJJ ENCFF550QJJ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 4.8 MB link
ENCFF631PTI ENCFF631PTI.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 5.6 MB link
ENCFF396TZQ ENCFF396TZQ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 5.0 MB link
ENCFF546FDP ENCFF546FDP.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 5.7 MB link
ENCFF042XJN ENCFF042XJN.fastq fastq (reads) reads 660.3 MB link
ENCFF165KAR ENCFF165KAR.fastq fastq (reads) reads 613.4 MB link
ENCFF461CTN ENCFF461CTN.fastq fastq (reads) reads 604.0 MB link
ENCFF877HWY ENCFF877HWY.fastq fastq (reads) reads 642.0 MB link