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ENCSR440SUX

ENCSR ENCODE
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eCLIP experiment on K562 against MATR3

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

Relations

control:ENCSR183FVK

Summary

eCLIP of MATR3 in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against MATR3

Analysis

View Data Processing
Analysis page is available for ENCSR440SUX.

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: 2.0 GB
Assay: eCLIP
Target: MATR3
Biosample: Homo sapiens K562
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
ENCFF014KBZ ENCFF014KBZ.bam bam (alignments); assembly: GRCh38 alignments GRCh38 260.9 MB link
ENCFF162SAS ENCFF162SAS.bam bam (alignments); assembly: GRCh38 alignments GRCh38 193.1 MB link
ENCFF010BJI ENCFF010BJI.bam bam (alignments); assembly: hg19 alignments hg19 274.9 MB link
ENCFF457BSQ ENCFF457BSQ.bam bam (alignments); assembly: hg19 alignments hg19 208.0 MB link
ENCFF081JME ENCFF081JME.bed bed (peaks); assembly: GRCh38 peaks GRCh38 923.8 KB link
ENCFF246EPM ENCFF246EPM.bed bed (peaks); assembly: GRCh38 peaks GRCh38 93.4 KB link
ENCFF558RNJ ENCFF558RNJ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.2 MB link
ENCFF046VQV ENCFF046VQV.bed bed (peaks); assembly: hg19 peaks hg19 96.6 KB link
ENCFF121ZEY ENCFF121ZEY.bed bed (peaks); assembly: hg19 peaks hg19 985.7 KB link
ENCFF904GOE ENCFF904GOE.bed bed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF073KHR ENCFF073KHR.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 1.8 MB link
ENCFF470CYN ENCFF470CYN.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.3 MB link
ENCFF055OIQ ENCFF055OIQ.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF564DPG ENCFF564DPG.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.4 MB link
ENCFF163VTI ENCFF163VTI.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 10.8 MB link
ENCFF356OIG ENCFF356OIG.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 13.8 MB link
ENCFF698OGN ENCFF698OGN.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 11.5 MB link
ENCFF776YBU ENCFF776YBU.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 14.6 MB link
ENCFF597BHN ENCFF597BHN.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 14.7 MB link
ENCFF752ZNH ENCFF752ZNH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 11.4 MB link
ENCFF074EAD ENCFF074EAD.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 12.1 MB link
ENCFF703CJM ENCFF703CJM.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 15.3 MB link
ENCFF358JCT ENCFF358JCT.fastq fastq (reads) reads 297.8 MB link
ENCFF365CXY ENCFF365CXY.fastq fastq (reads) reads 256.2 MB link
ENCFF806OBL ENCFF806OBL.fastq fastq (reads) reads 217.6 MB link
ENCFF991YSW ENCFF991YSW.fastq fastq (reads) reads 188.6 MB link