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ENCSR739VVT

ENCSR ENCODE
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eCLIP experiment on K562 against APOBEC3C

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

Relations

control:ENCSR382QLC

Summary

eCLIP of APOBEC3C in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against APOBEC3C

Analysis

View Data Processing
Analysis page is available for ENCSR739VVT.

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: 2.6 GB
Assay: eCLIP
Target: APOBEC3C
Biosample: Homo sapiens K562
Files: 32
Unique ENC file IDs: 32
File Formats
fastq (10) bigWig (8) bed (6) bam (4) bigBed (4)
Output types (5)
peaks (10) reads (10) alignments (4) minus strand signal of unique reads (4) plus strand signal of unique 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 (32)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF284TAX ENCFF284TAX.bam bam (alignments); assembly: GRCh38 alignments GRCh38 194.2 MB link
ENCFF943EZJ ENCFF943EZJ.bam bam (alignments); assembly: GRCh38 alignments GRCh38 103.2 MB link
ENCFF346VFW ENCFF346VFW.bam bam (alignments); assembly: hg19 alignments hg19 105.3 MB link
ENCFF398XYR ENCFF398XYR.bam bam (alignments); assembly: hg19 alignments hg19 199.6 MB link
ENCFF034NKK ENCFF034NKK.bed bed (peaks); assembly: GRCh38 peaks GRCh38 762.4 KB link
ENCFF273IBF ENCFF273IBF.bed bed (peaks); assembly: GRCh38 peaks GRCh38 625.8 KB link
ENCFF472CCL ENCFF472CCL.bed bed (peaks); assembly: GRCh38 peaks GRCh38 23.8 KB link
ENCFF319VBB ENCFF319VBB.bed bed (peaks); assembly: hg19 peaks hg19 770.7 KB link
ENCFF519AJS ENCFF519AJS.bed bed (peaks); assembly: hg19 peaks hg19 632.3 KB link
ENCFF736YDH ENCFF736YDH.bed bed (peaks); assembly: hg19 peaks hg19 23.2 KB link
ENCFF709WDL ENCFF709WDL.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.3 MB link
ENCFF785OQN ENCFF785OQN.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.1 MB link
ENCFF239THR ENCFF239THR.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.4 MB link
ENCFF436DAF ENCFF436DAF.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF571IFM ENCFF571IFM.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 5.5 MB link
ENCFF921RKR ENCFF921RKR.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 11.5 MB link
ENCFF379YZG ENCFF379YZG.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 11.7 MB link
ENCFF668IXD ENCFF668IXD.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 5.6 MB link
ENCFF430LRB ENCFF430LRB.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 5.7 MB link
ENCFF779MXW ENCFF779MXW.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.9 MB link
ENCFF039MJO ENCFF039MJO.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 12.1 MB link
ENCFF499WCD ENCFF499WCD.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 5.8 MB link
ENCFF023SPX ENCFF023SPX.fastq fastq (reads) reads 115.5 MB link
ENCFF082VYL ENCFF082VYL.fastq fastq (reads) reads 140.7 MB link
ENCFF260KKZ ENCFF260KKZ.fastq fastq (reads) reads 211.7 MB link
ENCFF285GQG ENCFF285GQG.fastq fastq (reads) reads 106.2 MB link
ENCFF315EQH ENCFF315EQH.fastq fastq (reads) reads 352.4 MB link
ENCFF315VJK ENCFF315VJK.fastq fastq (reads) reads 314.2 MB link
ENCFF392MTE ENCFF392MTE.fastq fastq (reads) reads 129.4 MB link
ENCFF655HJD ENCFF655HJD.fastq fastq (reads) reads 243.7 MB link
ENCFF713YLQ ENCFF713YLQ.fastq fastq (reads) reads 193.1 MB link
ENCFF774VNR ENCFF774VNR.fastq fastq (reads) reads 223.9 MB link