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ENCSR214BZA

ENCSR ENCODE
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eCLIP experiment on HepG2 against DDX59

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

Relations

control:ENCSR334OMC

Summary

eCLIP of DDX59 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against DDX59

Analysis

View Data Processing
Analysis page is available for ENCSR214BZA.

Dataset Citations (3)

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
PubMed citation (PMID 32728046)

ENCODE Metadata

Total file size: 3.3 GB
Assay: eCLIP
Target: DDX59
Biosample: Homo sapiens HepG2
Files: 34
Unique ENC file IDs: 34
File Formats
bed (10) bigBed (8) bigWig (8) bam (4) fastq (4)
Output types (5)
peaks (18) 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 (34)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF362KWY ENCFF362KWY.bam bam (alignments); assembly: GRCh38 alignments GRCh38 254.6 MB link
ENCFF538KWA ENCFF538KWA.bam bam (alignments); assembly: GRCh38 alignments GRCh38 386.1 MB link
ENCFF112UBR ENCFF112UBR.bam bam (alignments); assembly: hg19 alignments hg19 264.2 MB link
ENCFF480MRD ENCFF480MRD.bam bam (alignments); assembly: hg19 alignments hg19 398.8 MB link
ENCFF213PRP ENCFF213PRP.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.3 MB link
ENCFF751GMU ENCFF751GMU.bed bed (peaks); assembly: GRCh38 peaks GRCh38 175.4 KB link
ENCFF842ALM ENCFF842ALM.bed bed (peaks); assembly: GRCh38 peaks GRCh38 177.7 KB link
ENCFF899AWZ ENCFF899AWZ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 68.5 KB link
ENCFF991VJI ENCFF991VJI.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.7 MB link
ENCFF074EQM ENCFF074EQM.bed bed (peaks); assembly: hg19 peaks hg19 67.9 KB link
ENCFF115ZKB ENCFF115ZKB.bed bed (peaks); assembly: hg19 peaks hg19 530.2 KB link
ENCFF441KPC ENCFF441KPC.bed bed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF463LTL ENCFF463LTL.bed bed (peaks); assembly: hg19 peaks hg19 512.4 KB link
ENCFF485MSN ENCFF485MSN.bed bed (peaks); assembly: hg19 peaks hg19 1.8 MB link
ENCFF103EDF ENCFF103EDF.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 3.5 MB link
ENCFF225KVF ENCFF225KVF.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.6 MB link
ENCFF656DVH ENCFF656DVH.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 437.8 KB link
ENCFF731EXL ENCFF731EXL.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 437.6 KB link
ENCFF237BSF ENCFF237BSF.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.7 MB link
ENCFF292WGO ENCFF292WGO.bigBed bigBed (peaks); assembly: hg19 peaks hg19 993.0 KB link
ENCFF373XJU ENCFF373XJU.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1011.5 KB link
ENCFF703NTG ENCFF703NTG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.6 MB link
ENCFF447KAW ENCFF447KAW.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 13.6 MB link
ENCFF546NOY ENCFF546NOY.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 19.8 MB link
ENCFF233GUF ENCFF233GUF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 20.2 MB link
ENCFF630DNS ENCFF630DNS.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 14.0 MB link
ENCFF018RKD ENCFF018RKD.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 14.2 MB link
ENCFF472QKI ENCFF472QKI.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 20.4 MB link
ENCFF489JEJ ENCFF489JEJ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 14.7 MB link
ENCFF924DAL ENCFF924DAL.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 20.9 MB link
ENCFF191WAJ ENCFF191WAJ.fastq fastq (reads) reads 407.7 MB link
ENCFF298QDG ENCFF298QDG.fastq fastq (reads) reads 607.2 MB link
ENCFF735YZN ENCFF735YZN.fastq fastq (reads) reads 567.4 MB link
ENCFF828OKI ENCFF828OKI.fastq fastq (reads) reads 378.9 MB link