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ENCSR426JCD

ENCSR ENCODE
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RNA-seq on HepG2 cells treated with a CRISPR gRNA against GSK3B. (GSK3B-BGHcLV16)

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

Summary

CRISPR RNA-seq of GSK3B in Homo sapiens HepG2 genetically modified (deletion) using CRISPR targeting H. sapiens GSK3B

Overall Design

RNA-seq on HepG2 cells treated with a CRISPR gRNA against GSK3B. (GSK3B-BGHcLV16)

Analysis

View Data Processing
Analysis page is available for ENCSR426JCD.

ENCODE Metadata

Total file size: 40.6 GB
Assay: CRISPR RNA-seq
Target: GSK3B
Biosample: Homo sapiens HepG2 genetically modified (deletion) using CRISPR targeting H. sapiens GSK3B
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
ENCFF477FHL ENCFF477FHL.bam bam (alignments); assembly: GRCh38; genome annotation: V29 alignments GRCh38 4.5 GB link
ENCFF964WAW ENCFF964WAW.bam bam (alignments); assembly: GRCh38; genome annotation: V29 alignments GRCh38 5.1 GB link
ENCFF829IEQ ENCFF829IEQ.bam bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 transcriptome alignments GRCh38 10.6 GB link
ENCFF853RUQ ENCFF853RUQ.bam bam (transcriptome alignments); assembly: GRCh38; genome annotation: V29 transcriptome alignments GRCh38 9.1 GB link
ENCFF597RGB ENCFF597RGB.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 minus strand signal of all reads GRCh38 115.7 MB link
ENCFF986HYV ENCFF986HYV.bigWig bigWig (minus strand signal of all reads); assembly: GRCh38; genome annotation: V29 minus strand signal of all reads GRCh38 128.6 MB link
ENCFF226HHK ENCFF226HHK.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 minus strand signal of unique reads GRCh38 102.3 MB link
ENCFF494ZPX ENCFF494ZPX.bigWig bigWig (minus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 minus strand signal of unique reads GRCh38 115.4 MB link
ENCFF662KXE ENCFF662KXE.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 plus strand signal of all reads GRCh38 130.9 MB link
ENCFF911SCE ENCFF911SCE.bigWig bigWig (plus strand signal of all reads); assembly: GRCh38; genome annotation: V29 plus strand signal of all reads GRCh38 117.8 MB link
ENCFF736MCX ENCFF736MCX.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 plus strand signal of unique reads GRCh38 118.3 MB link
ENCFF970JCH ENCFF970JCH.bigWig bigWig (plus strand signal of unique reads); assembly: GRCh38; genome annotation: V29 plus strand signal of unique reads GRCh38 105.0 MB link
ENCFF073JVL ENCFF073JVL.fastq fastq (reads) reads 2.6 GB link
ENCFF118KUA ENCFF118KUA.fastq fastq (reads) reads 2.8 GB link
ENCFF254IXC ENCFF254IXC.fastq fastq (reads) reads 2.4 GB link
ENCFF854NQW ENCFF854NQW.fastq fastq (reads) reads 2.3 GB link
ENCFF389XBC ENCFF389XBC.tsv tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 gene quantifications GRCh38 10.4 MB link
ENCFF856BFG ENCFF856BFG.tsv tsv (gene quantifications); assembly: GRCh38; genome annotation: V29 gene quantifications GRCh38 10.4 MB link
ENCFF108DLM ENCFF108DLM.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 29.9 MB link
ENCFF219SKG ENCFF219SKG.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 27.5 MB link
ENCFF239KFS ENCFF239KFS.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 27.4 MB link
ENCFF708PNQ ENCFF708PNQ.tsv tsv (transcript quantifications); assembly: GRCh38; genome annotation: V29 transcript quantifications GRCh38 29.9 MB link