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ENCSR366DGX

ENCSR ENCODE
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eCLIP experiment on HepG2 against KHSRP

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

Relations

control:ENCSR423QXH

Summary

eCLIP of KHSRP in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against KHSRP

Analysis

View Data Processing
Analysis page is available for ENCSR366DGX.

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: 5.7 GB
Assay: eCLIP
Target: KHSRP
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
ENCFF701PJM ENCFF701PJM.bam bam (alignments); assembly: GRCh38 alignments GRCh38 729.5 MB link
ENCFF961WNO ENCFF961WNO.bam bam (alignments); assembly: GRCh38 alignments GRCh38 711.2 MB link
ENCFF464FAG ENCFF464FAG.bam bam (alignments); assembly: hg19 alignments hg19 746.8 MB link
ENCFF963RSK ENCFF963RSK.bam bam (alignments); assembly: hg19 alignments hg19 752.9 MB link
ENCFF611AHG ENCFF611AHG.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.9 MB link
ENCFF771QAU ENCFF771QAU.bed bed (peaks); assembly: GRCh38 peaks GRCh38 106.0 KB link
ENCFF988MWD ENCFF988MWD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.9 MB link
ENCFF509GWT ENCFF509GWT.bed bed (peaks); assembly: hg19 peaks hg19 2.8 MB link
ENCFF553APP ENCFF553APP.bed bed (peaks); assembly: hg19 peaks hg19 106.8 KB link
ENCFF891IAC ENCFF891IAC.bed bed (peaks); assembly: hg19 peaks hg19 3.0 MB link
ENCFF573GBE ENCFF573GBE.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 5.5 MB link
ENCFF630TDS ENCFF630TDS.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 5.5 MB link
ENCFF609DDN ENCFF609DDN.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.7 MB link
ENCFF830UWW ENCFF830UWW.bigBed bigBed (peaks); assembly: hg19 peaks hg19 5.4 MB link
ENCFF324JVF ENCFF324JVF.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 31.6 MB link
ENCFF992GXR ENCFF992GXR.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 32.8 MB link
ENCFF226SDL ENCFF226SDL.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 33.9 MB link
ENCFF558STP ENCFF558STP.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 33.5 MB link
ENCFF172TOY ENCFF172TOY.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 33.2 MB link
ENCFF906PCP ENCFF906PCP.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 31.7 MB link
ENCFF021EEK ENCFF021EEK.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 34.3 MB link
ENCFF137MID ENCFF137MID.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 33.2 MB link
ENCFF503GYR ENCFF503GYR.fastq fastq (reads) reads 662.4 MB link
ENCFF840EOA ENCFF840EOA.fastq fastq (reads) reads 623.6 MB link
ENCFF844XLZ ENCFF844XLZ.fastq fastq (reads) reads 701.9 MB link
ENCFF950SML ENCFF950SML.fastq fastq (reads) reads 588.3 MB link