ENCSR693MZJ
ENCSR ENCODEshRNA knockdown against HNRNPF in HepG2 cells followed by RNA-seq. (HNRNPF-BGHLV20)
Organism:
Homo sapiens
Experiment Types:
shRNA RNA-seq
Status:
archived
Contact:
Brenton Graveley, UConn
Summary
shRNA RNA-seq of HNRNPF in Homo sapiens HepG2 expressing RNAi targeting H. sapiens HNRNPF
Overall Design
shRNA knockdown against HNRNPF in HepG2 cells followed by RNA-seq. (HNRNPF-BGHLV20)
Analysis
View Data Processing
Analysis page is available for ENCSR693MZJ.
Dataset Citations (2)
ENCODE Metadata
Total file size: 94.9 GBAssay: shRNA RNA-seq
Target: HNRNPF
Biosample: Homo sapiens HepG2 expressing RNAi targeting H. sapiens HNRNPF
Files: 84
Unique ENC file IDs: 84
File Formats
bigWig (48)
bam (18)
tsv (14)
fastq (4)
Output types (9)
alignments (12)
minus strand signal of all reads (12)
minus strand signal of unique reads (12)
plus strand signal of all reads (12)
plus strand signal of unique reads (12)
transcript quantifications (8)
gene quantifications (6)
transcriptome alignments (6)
reads (4)
Data Files (84)
| Accession | File Name | Stored Type | Output Type | Mapping Assembly | Size | Download | |
|---|---|---|---|---|---|---|---|
| ENCFF242GCK | ENCFF242GCK.bam | bam (alignments); assembly: GRCh38; genome annotation: V24 | alignments | GRCh38 | 4.1 GB | link | |
| ENCFF370DLR | ENCFF370DLR.bam | bam (alignments); assembly: GRCh38; genome annotation: V24 | alignments | GRCh38 | 4.2 GB | link | |
| ENCFF746EIY | ENCFF746EIY.bam | bam (alignments); assembly: GRCh38; genome annotation: V24 | alignments | GRCh38 | 3.6 GB | link | |
| ENCFF957TLS | ENCFF957TLS.bam | bam (alignments); assembly: GRCh38; genome annotation: V24 | alignments | GRCh38 | 4.7 GB | link | |
| ENCFF425WGS | ENCFF425WGS.bam | bam (alignments); assembly: GRCh38; genome annotation: V29 | alignments | GRCh38 | 4.2 GB | link | |
| ENCFF714DKT | ENCFF714DKT.bam | bam (alignments); assembly: GRCh38; genome annotation: V29 | alignments | GRCh38 | 4.7 GB | link | |
| ENCFF024GTH | ENCFF024GTH.bam | bam (alignments); assembly: hg19; genome annotation: V19 | alignments | hg19 | 3.5 GB | link | |
| ENCFF168JPW | ENCFF168JPW.bam | bam (alignments); assembly: hg19; genome annotation: V19 | alignments | hg19 | 3.5 GB | link | |
| ENCFF438XHW | ENCFF438XHW.bam | bam (alignments); assembly: hg19; genome annotation: V19 | alignments | hg19 | 4.6 GB | link | |
| ENCFF593FFJ | ENCFF593FFJ.bam | bam (alignments); assembly: hg19; genome annotation: V19 | alignments | hg19 | 4.0 GB | link | |
| ENCFF802WSV | ENCFF802WSV.bam | bam (alignments); assembly: hg19; genome annotation: V19 | alignments | hg19 | 4.0 GB | link | |
| ENCFF977OTD | ENCFF977OTD.bam | bam (alignments); assembly: hg19; genome annotation: V19 | alignments | hg19 | 4.0 GB | link | |
| ENCFF424JWC | ENCFF424JWC.bam | bam (transcriptome alignments); assembly: GRCh38; genome annotation: V24 | transcriptome alignments | GRCh38 | 4.9 GB | link | |
| ENCFF879XDE | ENCFF879XDE.bam | bam (transcriptome alignments); assembly: GRCh38; genome annotation: V24 | transcriptome alignments | GRCh38 | 5.6 GB | link | |
| ENCFF277UDR | ENCFF277UDR.bam | bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 | transcriptome alignments | GRCh38 | 5.5 GB | link | |
| ENCFF289JPG | ENCFF289JPG.bam | bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 | transcriptome alignments | GRCh38 | 6.2 GB | link | |
| ENCFF512GVS | ENCFF512GVS.bam | bam (transcriptome alignments); assembly: hg19; genome annotation: V19 | transcriptome alignments | hg19 | 4.9 GB | link | |
| ENCFF710PWJ | ENCFF710PWJ.bam | bam (transcriptome alignments); assembly: hg19; genome annotation: V19 | transcriptome alignments | hg19 | 5.5 GB | link | |
| ENCFF141ZHY | ENCFF141ZHY.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of all reads | GRCh38 | 84.4 MB | link | |
| ENCFF399JAK | ENCFF399JAK.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of all reads | GRCh38 | 71.5 MB | link | |
| ENCFF667FFI | ENCFF667FFI.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of all reads | GRCh38 | 75.4 MB | link | |
| ENCFF835SNH | ENCFF835SNH.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of all reads | GRCh38 | 78.9 MB | link | |
| ENCFF059PXB | ENCFF059PXB.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of all reads | GRCh38 | 79.0 MB | link | |
| ENCFF197BNS | ENCFF197BNS.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of all reads | GRCh38 | 84.4 MB | link | |
| ENCFF364NKI | ENCFF364NKI.bigWig | bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 | minus strand signal of all reads | hg19 | 77.9 MB | link | |
| ENCFF386FVB | ENCFF386FVB.bigWig | bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 | minus strand signal of all reads | hg19 | 77.5 MB | link | |
| ENCFF469TCQ | ENCFF469TCQ.bigWig | bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 | minus strand signal of all reads | hg19 | 68.5 MB | link | |
| ENCFF596WXH | ENCFF596WXH.bigWig | bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 | minus strand signal of all reads | hg19 | 73.4 MB | link | |
| ENCFF627GTB | ENCFF627GTB.bigWig | bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 | minus strand signal of all reads | hg19 | 83.8 MB | link | |
| ENCFF767FUW | ENCFF767FUW.bigWig | bigWig (minus strand signal of all reads); assembly: hg19; genome annotation: V19 | minus strand signal of all reads | hg19 | 72.1 MB | link | |
| ENCFF043AWI | ENCFF043AWI.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of unique reads | GRCh38 | 70.8 MB | link | |
| ENCFF647ABL | ENCFF647ABL.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of unique reads | GRCh38 | 75.7 MB | link | |
| ENCFF658VTB | ENCFF658VTB.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of unique reads | GRCh38 | 66.6 MB | link | |
| ENCFF830USW | ENCFF830USW.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | minus strand signal of unique reads | GRCh38 | 70.7 MB | link | |
| ENCFF113RPE | ENCFF113RPE.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of unique reads | GRCh38 | 71.3 MB | link | |
| ENCFF990SPZ | ENCFF990SPZ.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of unique reads | GRCh38 | 75.4 MB | link | |
| ENCFF180BTB | ENCFF180BTB.bigWig | bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 | minus strand signal of unique reads | hg19 | 67.8 MB | link | |
| ENCFF185QBC | ENCFF185QBC.bigWig | bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 | minus strand signal of unique reads | hg19 | 68.5 MB | link | |
| ENCFF232HWS | ENCFF232HWS.bigWig | bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 | minus strand signal of unique reads | hg19 | 76.1 MB | link | |
| ENCFF427RNJ | ENCFF427RNJ.bigWig | bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 | minus strand signal of unique reads | hg19 | 71.5 MB | link | |
| ENCFF628KZG | ENCFF628KZG.bigWig | bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 | minus strand signal of unique reads | hg19 | 71.3 MB | link | |
| ENCFF642ECO | ENCFF642ECO.bigWig | bigWig (minus strand signal of unique reads); assembly: hg19; genome annotation: V19 | minus strand signal of unique reads | hg19 | 63.8 MB | link | |
| ENCFF548EIR | ENCFF548EIR.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of all reads | GRCh38 | 86.2 MB | link | |
| ENCFF599RZH | ENCFF599RZH.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of all reads | GRCh38 | 80.5 MB | link | |
| ENCFF712YKT | ENCFF712YKT.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of all reads | GRCh38 | 76.9 MB | link | |
| ENCFF893XCQ | ENCFF893XCQ.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of all reads | GRCh38 | 73.0 MB | link | |
| ENCFF144SWH | ENCFF144SWH.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of all reads | GRCh38 | 80.6 MB | link | |
| ENCFF374RCZ | ENCFF374RCZ.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of all reads | GRCh38 | 86.2 MB | link | |
| ENCFF030UXY | ENCFF030UXY.bigWig | bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 | plus strand signal of all reads | hg19 | 75.2 MB | link | |
| ENCFF534TKB | ENCFF534TKB.bigWig | bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 | plus strand signal of all reads | hg19 | 73.7 MB | link | |
| ENCFF786WPT | ENCFF786WPT.bigWig | bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 | plus strand signal of all reads | hg19 | 79.2 MB | link | |
| ENCFF907SWB | ENCFF907SWB.bigWig | bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 | plus strand signal of all reads | hg19 | 85.4 MB | link | |
| ENCFF940LUR | ENCFF940LUR.bigWig | bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 | plus strand signal of all reads | hg19 | 79.3 MB | link | |
| ENCFF950KAN | ENCFF950KAN.bigWig | bigWig (plus strand signal of all reads); assembly: hg19; genome annotation: V19 | plus strand signal of all reads | hg19 | 70.1 MB | link | |
| ENCFF147SRJ | ENCFF147SRJ.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of unique reads | GRCh38 | 77.8 MB | link | |
| ENCFF439FAA | ENCFF439FAA.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of unique reads | GRCh38 | 68.4 MB | link | |
| ENCFF545QTN | ENCFF545QTN.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of unique reads | GRCh38 | 72.6 MB | link | |
| ENCFF858LCK | ENCFF858LCK.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V24 | plus strand signal of unique reads | GRCh38 | 72.7 MB | link | |
| ENCFF184PHD | ENCFF184PHD.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of unique reads | GRCh38 | 77.5 MB | link | |
| ENCFF802UTN | ENCFF802UTN.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of unique reads | GRCh38 | 73.3 MB | link | |
| ENCFF075XTS | ENCFF075XTS.bigWig | bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 | plus strand signal of unique reads | hg19 | 78.3 MB | link | |
| ENCFF097VXJ | ENCFF097VXJ.bigWig | bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 | plus strand signal of unique reads | hg19 | 73.5 MB | link | |
| ENCFF431EQK | ENCFF431EQK.bigWig | bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 | plus strand signal of unique reads | hg19 | 73.4 MB | link | |
| ENCFF489QKB | ENCFF489QKB.bigWig | bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 | plus strand signal of unique reads | hg19 | 65.9 MB | link | |
| ENCFF521KPW | ENCFF521KPW.bigWig | bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 | plus strand signal of unique reads | hg19 | 70.7 MB | link | |
| ENCFF546GJY | ENCFF546GJY.bigWig | bigWig (plus strand signal of unique reads); assembly: hg19; genome annotation: V19 | plus strand signal of unique reads | hg19 | 69.8 MB | link | |
| ENCFF054WCD | ENCFF054WCD.fastq | fastq (reads) | reads | 2.4 GB | link | ||
| ENCFF116HMG | ENCFF116HMG.fastq | fastq (reads) | reads | 2.1 GB | link | ||
| ENCFF211BVG | ENCFF211BVG.fastq | fastq (reads) | reads | 2.6 GB | link | ||
| ENCFF409YPZ | ENCFF409YPZ.fastq | fastq (reads) | reads | 2.3 GB | link | ||
| ENCFF483HHC | ENCFF483HHC.tsv | tsv (gene quantifications); assembly: GRCh38; genome annotation: V24 | gene quantifications | GRCh38 | 9.4 MB | link | |
| ENCFF582EUY | ENCFF582EUY.tsv | tsv (gene quantifications); assembly: GRCh38; genome annotation: V24 | gene quantifications | GRCh38 | 9.4 MB | link | |
| ENCFF017VDL | ENCFF017VDL.tsv | tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 | gene quantifications | GRCh38 | 10.4 MB | link | |
| ENCFF958MRM | ENCFF958MRM.tsv | tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 | gene quantifications | GRCh38 | 10.4 MB | link | |
| ENCFF283DEG | ENCFF283DEG.tsv | tsv (gene quantifications); assembly: hg19; genome annotation: V19 | gene quantifications | hg19 | 9.1 MB | link | |
| ENCFF421BGO | ENCFF421BGO.tsv | tsv (gene quantifications); assembly: hg19; genome annotation: V19 | gene quantifications | hg19 | 9.1 MB | link | |
| ENCFF120TNI | ENCFF120TNI.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V24 | transcript quantifications | GRCh38 | 25.3 MB | link | |
| ENCFF839IGD | ENCFF839IGD.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V24 | transcript quantifications | GRCh38 | 25.3 MB | link | |
| ENCFF176CMZ | ENCFF176CMZ.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 27.3 MB | link | |
| ENCFF425TAR | ENCFF425TAR.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 29.8 MB | link | |
| ENCFF453VVJ | ENCFF453VVJ.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 29.8 MB | link | |
| ENCFF545CAW | ENCFF545CAW.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 27.4 MB | link | |
| ENCFF089JEP | ENCFF089JEP.tsv | tsv (transcript quantifications); assembly: hg19; genome annotation: V19 | transcript quantifications | hg19 | 24.9 MB | link | |
| ENCFF614NBN | ENCFF614NBN.tsv | tsv (transcript quantifications); assembly: hg19; genome annotation: V19 | transcript quantifications | hg19 | 24.9 MB | link |