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ENCSR050BDZ

ENCSR ENCODE
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eCLIP experiment on HepG2 against SDAD1

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

Relations

control:ENCSR130ZDS

Summary

eCLIP of SDAD1 in Homo sapiens HepG2

Overall Design

eCLIP experiment on HepG2 against SDAD1

Analysis

View Data Processing
Analysis page is available for ENCSR050BDZ.

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: 2.6 GB
Assay: eCLIP
Target: SDAD1
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
ENCFF079MBG ENCFF079MBG.bam bam (alignments); assembly: GRCh38 alignments GRCh38 97.1 MB link
ENCFF346NQQ ENCFF346NQQ.bam bam (alignments); assembly: GRCh38 alignments GRCh38 105.2 MB link
ENCFF004ZSD ENCFF004ZSD.bam bam (alignments); assembly: hg19 alignments hg19 97.7 MB link
ENCFF875HEP ENCFF875HEP.bam bam (alignments); assembly: hg19 alignments hg19 106.0 MB link
ENCFF336IRY ENCFF336IRY.bed bed (peaks); assembly: GRCh38 peaks GRCh38 592.9 KB link
ENCFF789KFH ENCFF789KFH.bed bed (peaks); assembly: GRCh38 peaks GRCh38 569.0 KB link
ENCFF825UVD ENCFF825UVD.bed bed (peaks); assembly: GRCh38 peaks GRCh38 22.9 KB link
ENCFF075XTM ENCFF075XTM.bed bed (peaks); assembly: hg19 peaks hg19 21.7 KB link
ENCFF325VKM ENCFF325VKM.bed bed (peaks); assembly: hg19 peaks hg19 595.1 KB link
ENCFF943KDD ENCFF943KDD.bed bed (peaks); assembly: hg19 peaks hg19 571.6 KB link
ENCFF060SCU ENCFF060SCU.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.0 MB link
ENCFF332RVY ENCFF332RVY.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.1 MB link
ENCFF625AZU ENCFF625AZU.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.0 MB link
ENCFF924ZKA ENCFF924ZKA.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF644PUX ENCFF644PUX.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 4.7 MB link
ENCFF830EAE ENCFF830EAE.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 5.0 MB link
ENCFF882KLF ENCFF882KLF.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 5.1 MB link
ENCFF909ZQB ENCFF909ZQB.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 4.8 MB link
ENCFF361RSB ENCFF361RSB.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 4.8 MB link
ENCFF697BPX ENCFF697BPX.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 5.2 MB link
ENCFF355EHK ENCFF355EHK.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 5.2 MB link
ENCFF988XDT ENCFF988XDT.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 4.9 MB link
ENCFF283KXT ENCFF283KXT.fastq fastq (reads) reads 540.9 MB link
ENCFF522VGK ENCFF522VGK.fastq fastq (reads) reads 555.9 MB link
ENCFF772OQA ENCFF772OQA.fastq fastq (reads) reads 526.2 MB link
ENCFF861PYS ENCFF861PYS.fastq fastq (reads) reads 537.9 MB link