Experiment summary for ENCSR597IYB

doi:10.17989/ENCSR597IYB

Summary

Status
released
Assay
shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
Target
EXOSC9
Biosample summary
Homo sapiens HepG2 expressing RNAi targeting H. sapiens EXOSC9
Biosample Type
cell line
Replication type
isogenic
Description
shRNA knockdown against EXOSC9 in HepG2 cells followed by RNA-seq. (EXOSC9 BGHLV14)
Nucleic acid type
polyadenylated mRNA
RNA integrity number
9.5 [1-1]9.6 [2-1]
Size range
>200
Extraction method
Maxwell 16 LEV simpleRNA Cells Kit (Promega cat#: AS1270)
Fragmentation methods
chemical (Illumina TruSeq)
Size selection method
SPRI beads
Strand specificity
Strand-specific (reverse)
Spike-ins datasets
ENCSR449DXG
Controls

Attribution

ENCODE3 project
Lab
Brenton Graveley, UConn
Award
U54HG007005 (Brenton Graveley, UConn)
Project
ENCODE
External resources
Aliases
brenton-graveley:EXOSC9_BGHLV14
Date submitted
November 4, 2014
Date released
November 20, 2014
Gene Silencing Series
ENCSR379WHE 
Tags
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Isogenic replicates

Isogenic replicate
Technical replicate
Summary
Biosample
Modifications
Library
11Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens EXOSC9ENCBS341ITGENCGM367KOHENCLB879LSE
21Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens EXOSC9ENCBS479RLAENCGM367KOHENCLB063LKH