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ENCSR490IEE

ENCSR ENCODE
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eCLIP experiment on HepG2 against UCHL5

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

Relations

control:ENCSR161TFX

Summary

eCLIP of UCHL5 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against UCHL5

Analysis

View Data Processing
Analysis page is available for ENCSR490IEE.

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: 6.8 GB
Assay: eCLIP
Target: UCHL5
Biosample: Homo sapiens HepG2
Files: 36
Unique ENC file IDs: 36
File Formats
bed (10) bigBed (10) bigWig (8) bam (4) fastq (4)
Output types (5)
peaks (20) 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 (36)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF132YAO ENCFF132YAO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 1.0 GB link
ENCFF476CPQ ENCFF476CPQ.bam bam (alignments); assembly: GRCh38 alignments GRCh38 654.9 MB link
ENCFF642XMP ENCFF642XMP.bam bam (alignments); assembly: hg19 alignments hg19 1.0 GB link
ENCFF671VFZ ENCFF671VFZ.bam bam (alignments); assembly: hg19 alignments hg19 687.1 MB link
ENCFF022FGD ENCFF022FGD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 3.3 MB link
ENCFF156QCZ ENCFF156QCZ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 401.2 KB link
ENCFF573DXD ENCFF573DXD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 50.4 KB link
ENCFF573KHP ENCFF573KHP.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.4 MB link
ENCFF619QWB ENCFF619QWB.bed bed (peaks); assembly: GRCh38 peaks GRCh38 466.3 KB link
ENCFF171KTG ENCFF171KTG.bed bed (peaks); assembly: hg19 peaks hg19 2.4 MB link
ENCFF305LRB ENCFF305LRB.bed bed (peaks); assembly: hg19 peaks hg19 3.3 MB link
ENCFF391KVJ ENCFF391KVJ.bed bed (peaks); assembly: hg19 peaks hg19 48.0 KB link
ENCFF623ENV ENCFF623ENV.bed bed (peaks); assembly: hg19 peaks hg19 1.5 MB link
ENCFF677SWL ENCFF677SWL.bed bed (peaks); assembly: hg19 peaks hg19 1.3 MB link
ENCFF111XBR ENCFF111XBR.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 964.0 KB link
ENCFF226OLL ENCFF226OLL.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 4.8 MB link
ENCFF776ICY ENCFF776ICY.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.0 MB link
ENCFF994NUD ENCFF994NUD.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 6.1 MB link
ENCFF022GSG ENCFF022GSG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.8 MB link
ENCFF225TVX ENCFF225TVX.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.0 MB link
ENCFF269VTE ENCFF269VTE.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.2 MB link
ENCFF473ZYA ENCFF473ZYA.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.7 MB link
ENCFF769QQG ENCFF769QQG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 6.1 MB link
ENCFF992CXW ENCFF992CXW.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.7 MB link
ENCFF704AZS ENCFF704AZS.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 43.1 MB link
ENCFF975XTM ENCFF975XTM.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 29.3 MB link
ENCFF050OHC ENCFF050OHC.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 43.9 MB link
ENCFF887BFF ENCFF887BFF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 30.3 MB link
ENCFF012CKH ENCFF012CKH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 44.2 MB link
ENCFF063XSO ENCFF063XSO.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 30.2 MB link
ENCFF907DUD ENCFF907DUD.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 31.3 MB link
ENCFF958DHS ENCFF958DHS.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 45.1 MB link
ENCFF007BPN ENCFF007BPN.fastq fastq (reads) reads 583.5 MB link
ENCFF101IOW ENCFF101IOW.fastq fastq (reads) reads 1.0 GB link
ENCFF322VWH ENCFF322VWH.fastq fastq (reads) reads 981.2 MB link
ENCFF769IXL ENCFF769IXL.fastq fastq (reads) reads 620.7 MB link