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ENCSR089BXO

ENCSR ENCODE
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eCLIP experiment on K562 against ABCF1

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

Relations

control:ENCSR857ORY

Summary

eCLIP of ABCF1 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against ABCF1

Analysis

View Data Processing
Analysis page is available for ENCSR089BXO.

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: 2.2 GB
Assay: eCLIP
Target: ABCF1
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
ENCFF811EXB ENCFF811EXB.bam bam (alignments); assembly: GRCh38 alignments GRCh38 64.2 MB link
ENCFF983ABI ENCFF983ABI.bam bam (alignments); assembly: GRCh38 alignments GRCh38 45.8 MB link
ENCFF203DRR ENCFF203DRR.bam bam (alignments); assembly: hg19 alignments hg19 68.6 MB link
ENCFF906OCW ENCFF906OCW.bam bam (alignments); assembly: hg19 alignments hg19 48.1 MB link
ENCFF300YSV ENCFF300YSV.bed bed (peaks); assembly: GRCh38 peaks GRCh38 236.5 KB link
ENCFF489WZV ENCFF489WZV.bed bed (peaks); assembly: GRCh38 peaks GRCh38 183.6 KB link
ENCFF941GJK ENCFF941GJK.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.5 KB link
ENCFF332BZR ENCFF332BZR.bed bed (peaks); assembly: hg19 peaks hg19 247.4 KB link
ENCFF376NBT ENCFF376NBT.bed bed (peaks); assembly: hg19 peaks hg19 191.2 KB link
ENCFF929AVT ENCFF929AVT.bed bed (peaks); assembly: hg19 peaks hg19 1.7 KB link
ENCFF010PPR ENCFF010PPR.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 518.2 KB link
ENCFF504NOI ENCFF504NOI.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 421.2 KB link
ENCFF307DZF ENCFF307DZF.bigBed bigBed (peaks); assembly: hg19 peaks hg19 433.7 KB link
ENCFF761ZBZ ENCFF761ZBZ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 540.2 KB link
ENCFF414SIN ENCFF414SIN.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 3.2 MB link
ENCFF470BUE ENCFF470BUE.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 2.5 MB link
ENCFF361IIP ENCFF361IIP.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 2.6 MB link
ENCFF521WPY ENCFF521WPY.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 3.3 MB link
ENCFF070VGS ENCFF070VGS.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 3.4 MB link
ENCFF090YWS ENCFF090YWS.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 2.6 MB link
ENCFF424BDA ENCFF424BDA.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 2.7 MB link
ENCFF832LUT ENCFF832LUT.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 3.5 MB link
ENCFF087VMD ENCFF087VMD.fastq fastq (reads) reads 462.6 MB link
ENCFF212LWQ ENCFF212LWQ.fastq fastq (reads) reads 529.7 MB link
ENCFF241MTQ ENCFF241MTQ.fastq fastq (reads) reads 450.7 MB link
ENCFF781LAN ENCFF781LAN.fastq fastq (reads) reads 520.6 MB link