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ENCSR455TNF

ENCSR ENCODE
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RNA-seq on K562 cells treated with an shRNA knockdown against TDP-43. (K562-set1b-shTDP43)

Organism: Homo sapiens
Experiment Types:
shRNA RNA-seq
Status: released
Contact: Brenton Graveley, UConn

Summary

shRNA RNA-seq of TARDBP in Homo sapiens K562 expressing RNAi targeting H. sapiens TARDBP

Overall Design

RNA-seq on K562 cells treated with an shRNA knockdown against TDP-43. (K562-set1b-shTDP43)

Analysis page is available for ENCSR455TNF.

Dataset Citations (2)

ENCODE Metadata

Total file size: 431.8 GB
Assay: shRNA RNA-seq
Target: TARDBP
Biosample: Homo sapiens K562 expressing RNAi targeting H. sapiens TARDBP
Files: 176
Unique ENC file IDs: 88
File Formats
bigWig (96) bam (36) tsv (28) fastq (16)
Output types (9)
alignments (24) minus strand signal of all reads (24) minus strand signal of unique reads (24) plus strand signal of all reads (24) plus strand signal of unique reads (24) reads (16) transcript quantifications (16) gene quantifications (12) transcriptome alignments (12)

Data Files (176)

Accession File Name Stored Type Output Type Mapping Assembly Size Download
ENCFF002BSG ENCFF002BSG.bam bam (alignments) alignments 8.2 GB link
ENCFF002BSG ENCFF002BSG.bam bam (alignments) alignments 8.2 GB link
ENCFF002BSH ENCFF002BSH.bam bam (alignments) alignments 9.3 GB link
ENCFF002BSH ENCFF002BSH.bam bam (alignments) alignments 9.3 GB link
ENCFF023QNG ENCFF023QNG.bam bam (alignments) alignments 10.1 GB link
ENCFF023QNG ENCFF023QNG.bam bam (alignments) alignments 10.1 GB link
ENCFF213XIE ENCFF213XIE.bam bam (alignments) alignments 9.8 GB link
ENCFF213XIE ENCFF213XIE.bam bam (alignments) alignments 9.8 GB link
ENCFF407RBD ENCFF407RBD.bam bam (alignments) alignments 10.1 GB link
ENCFF407RBD ENCFF407RBD.bam bam (alignments) alignments 10.1 GB link
ENCFF469NBB ENCFF469NBB.bam bam (alignments) alignments 11.6 GB link
ENCFF469NBB ENCFF469NBB.bam bam (alignments) alignments 11.6 GB link
ENCFF597JUZ ENCFF597JUZ.bam bam (alignments) alignments 11.6 GB link
ENCFF597JUZ ENCFF597JUZ.bam bam (alignments) alignments 11.6 GB link
ENCFF684VCM ENCFF684VCM.bam bam (alignments) alignments 11.2 GB link
ENCFF684VCM ENCFF684VCM.bam bam (alignments) alignments 11.2 GB link
ENCFF685STA ENCFF685STA.bam bam (alignments) alignments 8.2 GB link
ENCFF685STA ENCFF685STA.bam bam (alignments) alignments 8.2 GB link
ENCFF688AGB ENCFF688AGB.bam bam (alignments) alignments 9.5 GB link
ENCFF688AGB ENCFF688AGB.bam bam (alignments) alignments 9.5 GB link
ENCFF962WOQ ENCFF962WOQ.bam bam (alignments) alignments 8.3 GB link
ENCFF962WOQ ENCFF962WOQ.bam bam (alignments) alignments 8.3 GB link
ENCFF975EYH ENCFF975EYH.bam bam (alignments) alignments 9.3 GB link
ENCFF975EYH ENCFF975EYH.bam bam (alignments) alignments 9.3 GB link
ENCFF023HBM ENCFF023HBM.bam bam (transcriptome alignments) transcriptome alignments 11.7 GB link
ENCFF023HBM ENCFF023HBM.bam bam (transcriptome alignments) transcriptome alignments 11.7 GB link
ENCFF169UQK ENCFF169UQK.bam bam (transcriptome alignments) transcriptome alignments 10.3 GB link
ENCFF169UQK ENCFF169UQK.bam bam (transcriptome alignments) transcriptome alignments 10.3 GB link
ENCFF288FHW ENCFF288FHW.bam bam (transcriptome alignments) transcriptome alignments 10.3 GB link
ENCFF288FHW ENCFF288FHW.bam bam (transcriptome alignments) transcriptome alignments 10.3 GB link
ENCFF487YQB ENCFF487YQB.bam bam (transcriptome alignments) transcriptome alignments 11.0 GB link
ENCFF487YQB ENCFF487YQB.bam bam (transcriptome alignments) transcriptome alignments 11.0 GB link
ENCFF502NBF ENCFF502NBF.bam bam (transcriptome alignments) transcriptome alignments 12.5 GB link
ENCFF502NBF ENCFF502NBF.bam bam (transcriptome alignments) transcriptome alignments 12.5 GB link
ENCFF935UPS ENCFF935UPS.bam bam (transcriptome alignments) transcriptome alignments 11.0 GB link
ENCFF935UPS ENCFF935UPS.bam bam (transcriptome alignments) transcriptome alignments 11.0 GB link
ENCFF002BLK ENCFF002BLK.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 144.2 MB link
ENCFF002BLK ENCFF002BLK.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 144.2 MB link
ENCFF002BLO ENCFF002BLO.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 155.8 MB link
ENCFF002BLO ENCFF002BLO.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 155.8 MB link
ENCFF088YDI ENCFF088YDI.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 170.3 MB link
ENCFF088YDI ENCFF088YDI.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 170.3 MB link
ENCFF123ILQ ENCFF123ILQ.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 158.6 MB link
ENCFF123ILQ ENCFF123ILQ.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 158.6 MB link
ENCFF397KZF ENCFF397KZF.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 185.4 MB link
ENCFF397KZF ENCFF397KZF.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 185.4 MB link
ENCFF485AGA ENCFF485AGA.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 173.1 MB link
ENCFF485AGA ENCFF485AGA.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 173.1 MB link
ENCFF487NKV ENCFF487NKV.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 184.4 MB link
ENCFF487NKV ENCFF487NKV.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 184.4 MB link
ENCFF547ROA ENCFF547ROA.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 173.1 MB link
ENCFF547ROA ENCFF547ROA.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 173.1 MB link
ENCFF597NLY ENCFF597NLY.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 170.0 MB link
ENCFF597NLY ENCFF597NLY.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 170.0 MB link
ENCFF603LEH ENCFF603LEH.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 172.7 MB link
ENCFF603LEH ENCFF603LEH.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 172.7 MB link
ENCFF893GZG ENCFF893GZG.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 158.3 MB link
ENCFF893GZG ENCFF893GZG.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 158.3 MB link
ENCFF902NMO ENCFF902NMO.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 185.3 MB link
ENCFF902NMO ENCFF902NMO.bigWig bigWig (minus strand signal of all reads) minus strand signal of all reads 185.3 MB link
ENCFF002BLL ENCFF002BLL.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 134.9 MB link
ENCFF002BLL ENCFF002BLL.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 134.9 MB link
ENCFF002BLP ENCFF002BLP.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 145.9 MB link
ENCFF002BLP ENCFF002BLP.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 145.9 MB link
ENCFF069XPV ENCFF069XPV.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 147.2 MB link
ENCFF069XPV ENCFF069XPV.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 147.2 MB link
ENCFF162ERF ENCFF162ERF.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 154.6 MB link
ENCFF162ERF ENCFF162ERF.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 154.6 MB link
ENCFF247AKE ENCFF247AKE.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 170.7 MB link
ENCFF247AKE ENCFF247AKE.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 170.7 MB link
ENCFF377TOF ENCFF377TOF.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 155.1 MB link
ENCFF377TOF ENCFF377TOF.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 155.1 MB link
ENCFF438ZTX ENCFF438ZTX.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 159.3 MB link
ENCFF438ZTX ENCFF438ZTX.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 159.3 MB link
ENCFF463BYZ ENCFF463BYZ.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 162.9 MB link
ENCFF463BYZ ENCFF463BYZ.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 162.9 MB link
ENCFF717TFS ENCFF717TFS.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 148.9 MB link
ENCFF717TFS ENCFF717TFS.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 148.9 MB link
ENCFF729YNB ENCFF729YNB.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 170.6 MB link
ENCFF729YNB ENCFF729YNB.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 170.6 MB link
ENCFF756KYB ENCFF756KYB.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 158.7 MB link
ENCFF756KYB ENCFF756KYB.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 158.7 MB link
ENCFF897QLE ENCFF897QLE.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 170.3 MB link
ENCFF897QLE ENCFF897QLE.bigWig bigWig (minus strand signal of unique reads) minus strand signal of unique reads 170.3 MB link
ENCFF002BLM ENCFF002BLM.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 144.6 MB link
ENCFF002BLM ENCFF002BLM.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 144.6 MB link
ENCFF002BLQ ENCFF002BLQ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 156.7 MB link
ENCFF002BLQ ENCFF002BLQ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 156.7 MB link
ENCFF064WEE ENCFF064WEE.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 167.8 MB link
ENCFF064WEE ENCFF064WEE.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 167.8 MB link
ENCFF209LAJ ENCFF209LAJ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 159.8 MB link
ENCFF209LAJ ENCFF209LAJ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 159.8 MB link
ENCFF344TZZ ENCFF344TZZ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 187.0 MB link
ENCFF344TZZ ENCFF344TZZ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 187.0 MB link
ENCFF384DVU ENCFF384DVU.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 171.2 MB link
ENCFF384DVU ENCFF384DVU.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 171.2 MB link
ENCFF433OWP ENCFF433OWP.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 186.0 MB link
ENCFF433OWP ENCFF433OWP.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 186.0 MB link
ENCFF445EOH ENCFF445EOH.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 172.7 MB link
ENCFF445EOH ENCFF445EOH.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 172.7 MB link
ENCFF481HEQ ENCFF481HEQ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 171.2 MB link
ENCFF481HEQ ENCFF481HEQ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 171.2 MB link
ENCFF557PXZ ENCFF557PXZ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 157.7 MB link
ENCFF557PXZ ENCFF557PXZ.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 157.7 MB link
ENCFF719JLC ENCFF719JLC.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 187.2 MB link
ENCFF719JLC ENCFF719JLC.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 187.2 MB link
ENCFF868BFE ENCFF868BFE.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 171.2 MB link
ENCFF868BFE ENCFF868BFE.bigWig bigWig (plus strand signal of all reads) plus strand signal of all reads 171.2 MB link
ENCFF002BLN ENCFF002BLN.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 136.4 MB link
ENCFF002BLN ENCFF002BLN.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 136.4 MB link
ENCFF002BLR ENCFF002BLR.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 147.5 MB link
ENCFF002BLR ENCFF002BLR.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 147.5 MB link
ENCFF049GVJ ENCFF049GVJ.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 162.5 MB link
ENCFF049GVJ ENCFF049GVJ.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 162.5 MB link
ENCFF051CML ENCFF051CML.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 173.5 MB link
ENCFF051CML ENCFF051CML.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 173.5 MB link
ENCFF061QAV ENCFF061QAV.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 157.5 MB link
ENCFF061QAV ENCFF061QAV.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 157.5 MB link
ENCFF099ZHY ENCFF099ZHY.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 149.4 MB link
ENCFF099ZHY ENCFF099ZHY.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 149.4 MB link
ENCFF126VXL ENCFF126VXL.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 158.8 MB link
ENCFF126VXL ENCFF126VXL.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 158.8 MB link
ENCFF456BDN ENCFF456BDN.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 157.9 MB link
ENCFF456BDN ENCFF456BDN.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 157.9 MB link
ENCFF526QHT ENCFF526QHT.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 173.3 MB link
ENCFF526QHT ENCFF526QHT.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 173.3 MB link
ENCFF932EIQ ENCFF932EIQ.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 156.9 MB link
ENCFF932EIQ ENCFF932EIQ.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 156.9 MB link
ENCFF941BMO ENCFF941BMO.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 151.2 MB link
ENCFF941BMO ENCFF941BMO.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 151.2 MB link
ENCFF942WHM ENCFF942WHM.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 173.7 MB link
ENCFF942WHM ENCFF942WHM.bigWig bigWig (plus strand signal of unique reads) plus strand signal of unique reads 173.7 MB link
ENCFF002BUG ENCFF002BUG.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUG ENCFF002BUG.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUH ENCFF002BUH.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUH ENCFF002BUH.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUI ENCFF002BUI.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUI ENCFF002BUI.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUJ ENCFF002BUJ.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUJ ENCFF002BUJ.fastq fastq (reads) reads 2.8 GB link
ENCFF002BUK ENCFF002BUK.fastq fastq (reads) reads 3.2 GB link
ENCFF002BUK ENCFF002BUK.fastq fastq (reads) reads 3.2 GB link
ENCFF002BYN ENCFF002BYN.fastq fastq (reads) reads 3.2 GB link
ENCFF002BYN ENCFF002BYN.fastq fastq (reads) reads 3.2 GB link
ENCFF002BYR ENCFF002BYR.fastq fastq (reads) reads 3.2 GB link
ENCFF002BYR ENCFF002BYR.fastq fastq (reads) reads 3.2 GB link
ENCFF002BYS ENCFF002BYS.fastq fastq (reads) reads 3.2 GB link
ENCFF002BYS ENCFF002BYS.fastq fastq (reads) reads 3.2 GB link
ENCFF101KIP ENCFF101KIP.tsv tsv (gene quantifications) gene quantifications 9.1 MB link
ENCFF101KIP ENCFF101KIP.tsv tsv (gene quantifications) gene quantifications 9.1 MB link
ENCFF180AWU ENCFF180AWU.tsv tsv (gene quantifications) gene quantifications 9.1 MB link
ENCFF180AWU ENCFF180AWU.tsv tsv (gene quantifications) gene quantifications 9.1 MB link
ENCFF390SZZ ENCFF390SZZ.tsv tsv (gene quantifications) gene quantifications 9.4 MB link
ENCFF390SZZ ENCFF390SZZ.tsv tsv (gene quantifications) gene quantifications 9.4 MB link
ENCFF434XOC ENCFF434XOC.tsv tsv (gene quantifications) gene quantifications 10.4 MB link
ENCFF434XOC ENCFF434XOC.tsv tsv (gene quantifications) gene quantifications 10.4 MB link
ENCFF466RWM ENCFF466RWM.tsv tsv (gene quantifications) gene quantifications 9.4 MB link
ENCFF466RWM ENCFF466RWM.tsv tsv (gene quantifications) gene quantifications 9.4 MB link
ENCFF788KYS ENCFF788KYS.tsv tsv (gene quantifications) gene quantifications 10.4 MB link
ENCFF788KYS ENCFF788KYS.tsv tsv (gene quantifications) gene quantifications 10.4 MB link
ENCFF010REG ENCFF010REG.tsv tsv (transcript quantifications) transcript quantifications 29.9 MB link
ENCFF010REG ENCFF010REG.tsv tsv (transcript quantifications) transcript quantifications 29.9 MB link
ENCFF040FKD ENCFF040FKD.tsv tsv (transcript quantifications) transcript quantifications 29.9 MB link
ENCFF040FKD ENCFF040FKD.tsv tsv (transcript quantifications) transcript quantifications 29.9 MB link
ENCFF056JEL ENCFF056JEL.tsv tsv (transcript quantifications) transcript quantifications 24.9 MB link
ENCFF056JEL ENCFF056JEL.tsv tsv (transcript quantifications) transcript quantifications 24.9 MB link
ENCFF155SRR ENCFF155SRR.tsv tsv (transcript quantifications) transcript quantifications 24.9 MB link
ENCFF155SRR ENCFF155SRR.tsv tsv (transcript quantifications) transcript quantifications 24.9 MB link
ENCFF178AIZ ENCFF178AIZ.tsv tsv (transcript quantifications) transcript quantifications 27.5 MB link
ENCFF178AIZ ENCFF178AIZ.tsv tsv (transcript quantifications) transcript quantifications 27.5 MB link
ENCFF222AKO ENCFF222AKO.tsv tsv (transcript quantifications) transcript quantifications 25.4 MB link
ENCFF222AKO ENCFF222AKO.tsv tsv (transcript quantifications) transcript quantifications 25.4 MB link
ENCFF674KEI ENCFF674KEI.tsv tsv (transcript quantifications) transcript quantifications 27.5 MB link
ENCFF674KEI ENCFF674KEI.tsv tsv (transcript quantifications) transcript quantifications 27.5 MB link
ENCFF951FVI ENCFF951FVI.tsv tsv (transcript quantifications) transcript quantifications 25.4 MB link
ENCFF951FVI ENCFF951FVI.tsv tsv (transcript quantifications) transcript quantifications 25.4 MB link