ENCSR466NRW
ENCSR ENCODERNA-seq on HepG2 cells treated with an shRNA knockdown against PRPF4. (PRPF4-BGHLV37-D)
Organism:
Homo sapiens
Experiment Types:
shRNA RNA-seq
Status:
released
Contact:
Brenton Graveley, UConn
Summary
shRNA RNA-seq of PRPF4 in Homo sapiens HepG2 expressing RNAi targeting H. sapiens PRPF4
Overall Design
RNA-seq on HepG2 cells treated with an shRNA knockdown against PRPF4. (PRPF4-BGHLV37-D)
Analysis
View Data Processing
Analysis page is available for ENCSR466NRW.
ENCODE Metadata
Total file size: 15.8 GBAssay: shRNA RNA-seq
Target: PRPF4
Biosample: Homo sapiens HepG2 expressing RNAi targeting H. sapiens PRPF4
Files: 22
Unique ENC file IDs: 22
File Formats
bigWig (8)
tsv (6)
bam (4)
fastq (4)
Output types (9)
reads (4)
transcript quantifications (4)
alignments (2)
gene quantifications (2)
minus strand signal of all reads (2)
minus strand signal of unique reads (2)
plus strand signal of all reads (2)
plus strand signal of unique reads (2)
transcriptome alignments (2)
Data Files (22)
| Accession | File Name | Stored Type | Output Type | Mapping Assembly | Size | Download | |
|---|---|---|---|---|---|---|---|
| ENCFF472EMZ | ENCFF472EMZ.bam | bam (alignments); assembly: GRCh38; genome annotation: V29 | alignments | GRCh38 | 2.4 GB | link | |
| ENCFF622ULI | ENCFF622ULI.bam | bam (alignments); assembly: GRCh38; genome annotation: V29 | alignments | GRCh38 | 2.2 GB | link | |
| ENCFF012LZM | ENCFF012LZM.bam | bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 | transcriptome alignments | GRCh38 | 3.2 GB | link | |
| ENCFF337ONU | ENCFF337ONU.bam | bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 | transcriptome alignments | GRCh38 | 3.3 GB | link | |
| ENCFF297VPG | ENCFF297VPG.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of all reads | GRCh38 | 52.6 MB | link | |
| ENCFF430UDQ | ENCFF430UDQ.bigWig | bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of all reads | GRCh38 | 51.7 MB | link | |
| ENCFF016TFK | ENCFF016TFK.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of unique reads | GRCh38 | 46.9 MB | link | |
| ENCFF623XGJ | ENCFF623XGJ.bigWig | bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | minus strand signal of unique reads | GRCh38 | 47.0 MB | link | |
| ENCFF061RBN | ENCFF061RBN.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of all reads | GRCh38 | 53.6 MB | link | |
| ENCFF955AVD | ENCFF955AVD.bigWig | bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of all reads | GRCh38 | 52.8 MB | link | |
| ENCFF473ARO | ENCFF473ARO.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of unique reads | GRCh38 | 48.2 MB | link | |
| ENCFF683HUM | ENCFF683HUM.bigWig | bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 | plus strand signal of unique reads | GRCh38 | 48.3 MB | link | |
| ENCFF253WPZ | ENCFF253WPZ.fastq | fastq (reads) | reads | 1.2 GB | link | ||
| ENCFF257YCR | ENCFF257YCR.fastq | fastq (reads) | reads | 1.1 GB | link | ||
| ENCFF297GRL | ENCFF297GRL.fastq | fastq (reads) | reads | 978.0 MB | link | ||
| ENCFF652JYU | ENCFF652JYU.fastq | fastq (reads) | reads | 1008.9 MB | link | ||
| ENCFF123WGL | ENCFF123WGL.tsv | tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 | gene quantifications | GRCh38 | 10.4 MB | link | |
| ENCFF165UHK | ENCFF165UHK.tsv | tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 | gene quantifications | GRCh38 | 10.4 MB | link | |
| ENCFF182LEZ | ENCFF182LEZ.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 29.8 MB | link | |
| ENCFF209GKT | ENCFF209GKT.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 27.2 MB | link | |
| ENCFF406CQW | ENCFF406CQW.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 29.8 MB | link | |
| ENCFF876UIZ | ENCFF876UIZ.tsv | tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 | transcript quantifications | GRCh38 | 27.1 MB | link |