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ENCSR023UHL

ENCSR ENCODE
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eCLIP experiment on HepG2 against FASTKD2

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

Relations

control:ENCSR671FKF

Summary

eCLIP of FASTKD2 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against FASTKD2

Analysis

View Data Processing
Analysis page is available for ENCSR023UHL.

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: 4.1 GB
Assay: eCLIP
Target: FASTKD2
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
ENCFF064QSN ENCFF064QSN.bam bam (alignments); assembly: GRCh38 alignments GRCh38 571.3 MB link
ENCFF307ZHU ENCFF307ZHU.bam bam (alignments); assembly: GRCh38 alignments GRCh38 348.5 MB link
ENCFF121OYK ENCFF121OYK.bam bam (alignments); assembly: hg19 alignments hg19 368.2 MB link
ENCFF903QKL ENCFF903QKL.bam bam (alignments); assembly: hg19 alignments hg19 591.9 MB link
ENCFF125BSO ENCFF125BSO.bed bed (peaks); assembly: GRCh38 peaks GRCh38 334.4 KB link
ENCFF177RJW ENCFF177RJW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 2.4 MB link
ENCFF498IGK ENCFF498IGK.bed bed (peaks); assembly: GRCh38 peaks GRCh38 20.4 KB link
ENCFF557GSC ENCFF557GSC.bed bed (peaks); assembly: GRCh38 peaks GRCh38 200.5 KB link
ENCFF828HJF ENCFF828HJF.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.5 MB link
ENCFF124DCX ENCFF124DCX.bed bed (peaks); assembly: hg19 peaks hg19 651.8 KB link
ENCFF136QLO ENCFF136QLO.bed bed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF173TLB ENCFF173TLB.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF265RIO ENCFF265RIO.bed bed (peaks); assembly: hg19 peaks hg19 20.3 KB link
ENCFF503DBN ENCFF503DBN.bed bed (peaks); assembly: hg19 peaks hg19 2.4 MB link
ENCFF132EGC ENCFF132EGC.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 809.3 KB link
ENCFF479YXW ENCFF479YXW.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 482.2 KB link
ENCFF530DLQ ENCFF530DLQ.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 4.7 MB link
ENCFF776JXK ENCFF776JXK.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 3.1 MB link
ENCFF024HPG ENCFF024HPG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF294NMK ENCFF294NMK.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.2 MB link
ENCFF465QMA ENCFF465QMA.bigBed bigBed (peaks); assembly: hg19 peaks hg19 4.7 MB link
ENCFF845FUE ENCFF845FUE.bigBed bigBed (peaks); assembly: hg19 peaks hg19 3.2 MB link
ENCFF128XPI ENCFF128XPI.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 15.3 MB link
ENCFF528QYR ENCFF528QYR.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 24.0 MB link
ENCFF142KYH ENCFF142KYH.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 16.0 MB link
ENCFF472XVF ENCFF472XVF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 24.6 MB link
ENCFF114NAX ENCFF114NAX.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 15.6 MB link
ENCFF728SIS ENCFF728SIS.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 24.5 MB link
ENCFF092YPS ENCFF092YPS.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 25.1 MB link
ENCFF967TLU ENCFF967TLU.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 16.4 MB link
ENCFF128ROY ENCFF128ROY.fastq fastq (reads) reads 422.2 MB link
ENCFF540UVX ENCFF540UVX.fastq fastq (reads) reads 665.8 MB link
ENCFF761ZXY ENCFF761ZXY.fastq fastq (reads) reads 426.4 MB link
ENCFF891HJO ENCFF891HJO.fastq fastq (reads) reads 647.7 MB link