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ENCSR820UYE

ENCSR ENCODE
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eCLIP experiment on HepG2 against PABPN1

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

Relations

control:ENCSR310WYE

Summary

eCLIP of PABPN1 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against PABPN1

Analysis

View Data Processing
Analysis page is available for ENCSR820UYE.

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: 3.3 GB
Assay: eCLIP
Target: PABPN1
Biosample: Homo sapiens HepG2
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
ENCFF145LAD ENCFF145LAD.bam bam (alignments); assembly: GRCh38 alignments GRCh38 317.1 MB link
ENCFF974AOE ENCFF974AOE.bam bam (alignments); assembly: GRCh38 alignments GRCh38 358.1 MB link
ENCFF441BOM ENCFF441BOM.bam bam (alignments); assembly: hg19 alignments hg19 337.7 MB link
ENCFF922VHA ENCFF922VHA.bam bam (alignments); assembly: hg19 alignments hg19 369.6 MB link
ENCFF709FEU ENCFF709FEU.bed bed (peaks); assembly: GRCh38 peaks GRCh38 87.8 KB link
ENCFF715LJJ ENCFF715LJJ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF890DJI ENCFF890DJI.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF190DLZ ENCFF190DLZ.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF927DMJ ENCFF927DMJ.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF975HKC ENCFF975HKC.bed bed (peaks); assembly: hg19 peaks hg19 88.1 KB link
ENCFF028AVQ ENCFF028AVQ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.5 MB link
ENCFF544SIB ENCFF544SIB.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.0 MB link
ENCFF107VBS ENCFF107VBS.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.6 MB link
ENCFF978BHG ENCFF978BHG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF805VZB ENCFF805VZB.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 15.1 MB link
ENCFF996QBV ENCFF996QBV.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 16.3 MB link
ENCFF755RZB ENCFF755RZB.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 16.7 MB link
ENCFF831ZJY ENCFF831ZJY.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 15.8 MB link
ENCFF185CCB ENCFF185CCB.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 15.7 MB link
ENCFF615GBE ENCFF615GBE.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 16.7 MB link
ENCFF767IPH ENCFF767IPH.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 16.4 MB link
ENCFF878GRC ENCFF878GRC.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 17.0 MB link
ENCFF009PZB ENCFF009PZB.fastq fastq (reads) reads 419.3 MB link
ENCFF049DAF ENCFF049DAF.fastq fastq (reads) reads 522.4 MB link
ENCFF482ULC ENCFF482ULC.fastq fastq (reads) reads 492.4 MB link
ENCFF937NJC ENCFF937NJC.fastq fastq (reads) reads 448.1 MB link