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ENCSR000SSH

ENCSR ENCODE
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eCLIP experiment on K562 against SLTM

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

Relations

control:ENCSR820GBM

Summary

eCLIP of SLTM in Homo sapiens K562

Overall Design

eCLIP experiment on K562 against SLTM

Analysis

View Data Processing
Analysis page is available for ENCSR000SSH.

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: 2.4 GB
Assay: eCLIP
Target: SLTM
Biosample: Homo sapiens K562
Files: 36
Unique ENC file IDs: 36
File Formats
bed (10) bigBed (10) bigWig (8) bam (4) fastq (4)
Output types (5)
peaks (20) 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 (36)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF396BVL ENCFF396BVL.bam bam (alignments); assembly: GRCh38 alignments GRCh38 223.4 MB link
ENCFF712SXL ENCFF712SXL.bam bam (alignments); assembly: GRCh38 alignments GRCh38 277.3 MB link
ENCFF405BRH ENCFF405BRH.bam bam (alignments); assembly: hg19 alignments hg19 282.3 MB link
ENCFF827FAW ENCFF827FAW.bam bam (alignments); assembly: hg19 alignments hg19 227.6 MB link
ENCFF125YXW ENCFF125YXW.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.4 MB link
ENCFF485BRZ ENCFF485BRZ.bed bed (peaks); assembly: GRCh38 peaks GRCh38 1.1 MB link
ENCFF587QQE ENCFF587QQE.bed bed (peaks); assembly: GRCh38 peaks GRCh38 202.9 KB link
ENCFF696QWE ENCFF696QWE.bed bed (peaks); assembly: GRCh38 peaks GRCh38 73.4 KB link
ENCFF871GKS ENCFF871GKS.bed bed (peaks); assembly: GRCh38 peaks GRCh38 153.0 KB link
ENCFF052VSB ENCFF052VSB.bed bed (peaks); assembly: hg19 peaks hg19 1.1 MB link
ENCFF392CBU ENCFF392CBU.bed bed (peaks); assembly: hg19 peaks hg19 1.4 MB link
ENCFF413ZOM ENCFF413ZOM.bed bed (peaks); assembly: hg19 peaks hg19 564.1 KB link
ENCFF693ZAZ ENCFF693ZAZ.bed bed (peaks); assembly: hg19 peaks hg19 70.9 KB link
ENCFF944JYG ENCFF944JYG.bed bed (peaks); assembly: hg19 peaks hg19 432.8 KB link
ENCFF018YNA ENCFF018YNA.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.2 MB link
ENCFF113JDM ENCFF113JDM.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 2.8 MB link
ENCFF207CVG ENCFF207CVG.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 399.2 KB link
ENCFF760PJU ENCFF760PJU.bigBed bigBed (peaks); assembly: GRCh38 peaks GRCh38 479.6 KB link
ENCFF142CYB ENCFF142CYB.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.6 MB link
ENCFF419ZVO ENCFF419ZVO.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.2 MB link
ENCFF525TDH ENCFF525TDH.bigBed bigBed (peaks); assembly: hg19 peaks hg19 1.2 MB link
ENCFF557ZHN ENCFF557ZHN.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.0 MB link
ENCFF850ANR ENCFF850ANR.bigBed bigBed (peaks); assembly: hg19 peaks hg19 858.6 KB link
ENCFF990IRK ENCFF990IRK.bigBed bigBed (peaks); assembly: hg19 peaks hg19 2.7 MB link
ENCFF206WBW ENCFF206WBW.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 15.7 MB link
ENCFF579HWA ENCFF579HWA.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38 minus strand signal of unique reads GRCh38 13.5 MB link
ENCFF224OZW ENCFF224OZW.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 15.7 MB link
ENCFF690BRU ENCFF690BRU.bigWig bigWig (minus strand signal of unique reads); assembly: hg19 minus strand signal of unique reads hg19 13.6 MB link
ENCFF373IVQ ENCFF373IVQ.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 14.0 MB link
ENCFF665PCI ENCFF665PCI.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38 plus strand signal of unique reads GRCh38 16.4 MB link
ENCFF143UZQ ENCFF143UZQ.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 14.1 MB link
ENCFF281QMA ENCFF281QMA.bigWig bigWig (plus strand signal of unique reads); assembly: hg19 plus strand signal of unique reads hg19 16.7 MB link
ENCFF334ONA ENCFF334ONA.fastq fastq (reads) reads 299.7 MB link
ENCFF470BUR ENCFF470BUR.fastq fastq (reads) reads 351.0 MB link
ENCFF506XBB ENCFF506XBB.fastq fastq (reads) reads 318.6 MB link
ENCFF896KIF ENCFF896KIF.fastq fastq (reads) reads 372.0 MB link