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ENCSR550DVK

ENCSR ENCODE
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eCLIP experiment on HepG2 against HNRNPC

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

Relations

control:ENCSR497ANA

Summary

eCLIP of HNRNPC in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against HNRNPC

Analysis

View Data Processing
Analysis page is available for ENCSR550DVK.

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: 7.0 GB
Assay: eCLIP
Target: HNRNPC
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
ENCFF162FHQ ENCFF162FHQ.bam bam (alignments); assembly: GRCh38 alignments GRCh38 781.2 MB link
ENCFF630YNF ENCFF630YNF.bam bam (alignments); assembly: GRCh38 alignments GRCh38 1.1 GB link
ENCFF736ZQQ ENCFF736ZQQ.bam bam (alignments); assembly: hg19 alignments hg19 1.0 GB link
ENCFF869PNM ENCFF869PNM.bam bam (alignments); assembly: hg19 alignments hg19 785.9 MB link
ENCFF230QOU ENCFF230QOU.bed bed (peaks); assembly: GRCh38 peaks GRCh38 4.9 MB link
ENCFF264TJL ENCFF264TJL.bed bed (peaks); assembly: GRCh38 peaks GRCh38 450.6 KB link
ENCFF440ROZ ENCFF440ROZ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 70.1 KB link
ENCFF534YQS ENCFF534YQS.bed bed (peaks); assembly: GRCh38 peaks GRCh38 6.5 MB link
ENCFF991KAG ENCFF991KAG.bed bed (peaks); assembly: GRCh38 peaks GRCh38 352.5 KB link
ENCFF103MEF ENCFF103MEF.bed bed (peaks); assembly: hg19 peaks hg19 926.6 KB link
ENCFF105AKX ENCFF105AKX.bed bed (peaks); assembly: hg19 peaks hg19 67.4 KB link
ENCFF244ESX ENCFF244ESX.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF401SPQ ENCFF401SPQ.bed bed (peaks); assembly: hg19 peaks hg19 6.4 MB link
ENCFF738FJS ENCFF738FJS.bed bed (peaks); assembly: hg19 peaks hg19 4.9 MB link
ENCFF006KTQ ENCFF006KTQ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 11.2 MB link
ENCFF344JSD ENCFF344JSD.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 8.6 MB link
ENCFF524SLW ENCFF524SLW.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 911.5 KB link
ENCFF887LOE ENCFF887LOE.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 748.8 KB link
ENCFF260KPQ ENCFF260KPQ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 8.6 MB link
ENCFF470TOW ENCFF470TOW.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.4 MB link
ENCFF576LCX ENCFF576LCX.bigBed bigBed (peaks); assembly: hg19 peaks hg19 11.0 MB link
ENCFF857KDA ENCFF857KDA.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF950TEB ENCFF950TEB.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.1 MB link
ENCFF962BZR ENCFF962BZR.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.7 MB link
ENCFF406EWT ENCFF406EWT.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 54.7 MB link
ENCFF891BFD ENCFF891BFD.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 38.7 MB link
ENCFF361VEU ENCFF361VEU.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 38.9 MB link
ENCFF652VTM ENCFF652VTM.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 54.4 MB link
ENCFF774JCA ENCFF774JCA.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 56.3 MB link
ENCFF930WRN ENCFF930WRN.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 39.7 MB link
ENCFF674FGK ENCFF674FGK.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 39.9 MB link
ENCFF705SJW ENCFF705SJW.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 56.0 MB link
ENCFF035QUK ENCFF035QUK.fastq fastq (reads) reads 629.1 MB link
ENCFF040BGS ENCFF040BGS.fastq fastq (reads) reads 886.2 MB link
ENCFF065BIC ENCFF065BIC.fastq fastq (reads) reads 646.7 MB link
ENCFF584MZO ENCFF584MZO.fastq fastq (reads) reads 807.5 MB link