ENCSR456ASB
ENCSR ENCODEeCLIP experiment on K562 against UPF1
Organism:
Homo sapiens
Experiment Types:
eCLIP
Status:
released
Contact:
Gene Yeo, UCSD
Relations
Summary
eCLIP of UPF1 in Homo sapiens K562
Overall Design
eCLIP experiment on K562 against UPF1
Analysis
View Data Processing
Analysis page is available for ENCSR456ASB.
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
ENCODE Metadata
Total file size: 2.7 GBAssay: eCLIP
Target: UPF1
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)
Data Files (36)
| Accession | File Name | Stored Type | Output Type | Mapping Assembly | Size | Download | |
|---|---|---|---|---|---|---|---|
| ENCFF119DJS | ENCFF119DJS.bam | bam (alignments) | alignments | 261.8 MB | link | ||
| ENCFF174FBV | ENCFF174FBV.bam | bam (alignments) | alignments | 311.4 MB | link | ||
| ENCFF701TPG | ENCFF701TPG.bam | bam (alignments) | alignments | 300.6 MB | link | ||
| ENCFF948AOR | ENCFF948AOR.bam | bam (alignments) | alignments | 247.2 MB | link | ||
| ENCFF373CCG | ENCFF373CCG.bed | bed (peaks) | peaks | 864.6 KB | link | ||
| ENCFF518MSP | ENCFF518MSP.bed | bed (peaks) | peaks | 1.1 MB | link | ||
| ENCFF597NVR | ENCFF597NVR.bed | bed (peaks) | peaks | 315.8 KB | link | ||
| ENCFF668YCA | ENCFF668YCA.bed | bed (peaks) | peaks | 375.7 KB | link | ||
| ENCFF707BGL | ENCFF707BGL.bed | bed (peaks) | peaks | 1.4 MB | link | ||
| ENCFF792HYY | ENCFF792HYY.bed | bed (peaks) | peaks | 1.4 MB | link | ||
| ENCFF799UKK | ENCFF799UKK.bed | bed (peaks) | peaks | 385.9 KB | link | ||
| ENCFF814JGE | ENCFF814JGE.bed | bed (peaks) | peaks | 317.3 KB | link | ||
| ENCFF847ILS | ENCFF847ILS.bed | bed (peaks) | peaks | 890.0 KB | link | ||
| ENCFF873FZT | ENCFF873FZT.bed | bed (peaks) | peaks | 1.2 MB | link | ||
| ENCFF053DWE | ENCFF053DWE.bigBed | bigBed (peaks) | peaks | 2.7 MB | link | ||
| ENCFF107ESG | ENCFF107ESG.bigBed | bigBed (peaks) | peaks | 2.7 MB | link | ||
| ENCFF299YME | ENCFF299YME.bigBed | bigBed (peaks) | peaks | 2.2 MB | link | ||
| ENCFF346DUT | ENCFF346DUT.bigBed | bigBed (peaks) | peaks | 2.8 MB | link | ||
| ENCFF740ACZ | ENCFF740ACZ.bigBed | bigBed (peaks) | peaks | 1.9 MB | link | ||
| ENCFF855FDZ | ENCFF855FDZ.bigBed | bigBed (peaks) | peaks | 2.9 MB | link | ||
| ENCFF892NTJ | ENCFF892NTJ.bigBed | bigBed (peaks) | peaks | 914.4 KB | link | ||
| ENCFF911ITL | ENCFF911ITL.bigBed | bigBed (peaks) | peaks | 2.2 MB | link | ||
| ENCFF971UYV | ENCFF971UYV.bigBed | bigBed (peaks) | peaks | 1.9 MB | link | ||
| ENCFF985USP | ENCFF985USP.bigBed | bigBed (peaks) | peaks | 925.7 KB | link | ||
| ENCFF433CWN | ENCFF433CWN.bigWig | bigWig (minus strand signal of unique reads) | minus strand signal of unique reads | 15.4 MB | link | ||
| ENCFF679ADZ | ENCFF679ADZ.bigWig | bigWig (minus strand signal of unique reads) | minus strand signal of unique reads | 15.7 MB | link | ||
| ENCFF892KAG | ENCFF892KAG.bigWig | bigWig (minus strand signal of unique reads) | minus strand signal of unique reads | 13.5 MB | link | ||
| ENCFF964TKW | ENCFF964TKW.bigWig | bigWig (minus strand signal of unique reads) | minus strand signal of unique reads | 13.1 MB | link | ||
| ENCFF684MFT | ENCFF684MFT.bigWig | bigWig (plus strand signal of unique reads) | plus strand signal of unique reads | 16.0 MB | link | ||
| ENCFF696ORH | ENCFF696ORH.bigWig | bigWig (plus strand signal of unique reads) | plus strand signal of unique reads | 13.8 MB | link | ||
| ENCFF935WLO | ENCFF935WLO.bigWig | bigWig (plus strand signal of unique reads) | plus strand signal of unique reads | 16.4 MB | link | ||
| ENCFF992STI | ENCFF992STI.bigWig | bigWig (plus strand signal of unique reads) | plus strand signal of unique reads | 14.3 MB | link | ||
| ENCFF170KCT | ENCFF170KCT.fastq | fastq (reads) | reads | 355.0 MB | link | ||
| ENCFF425NCO | ENCFF425NCO.fastq | fastq (reads) | reads | 360.6 MB | link | ||
| ENCFF466HWF | ENCFF466HWF.fastq | fastq (reads) | reads | 367.7 MB | link | ||
| ENCFF493EKO | ENCFF493EKO.fastq | fastq (reads) | reads | 362.4 MB | link |