Experiment summary for ENCSR110ZYD

doi:10.17989/ENCSR110ZYD

Summary

Status
released
Assay
shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
Target
SAFB2
Biosample summary
Homo sapiens HepG2 expressing RNAi targeting H. sapiens SAFB2
Biosample Type
cell line
Replication type
isogenic
Description
shRNA knockdown against SAFB2 in HepG2 cells followed by RNA-seq. (SAFB2-57-BGHLV20)
Nucleic acid type
polyadenylated mRNA
RNA integrity number
9.7 [2-1]10 [1-1]
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:SAFB2-57-BGHLV20
Date submitted
August 12, 2015
Date released
August 18, 2015
Gene Silencing Series
ENCSR616DAC 
Tags
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Isogenic replicates

Isogenic replicate
Technical replicate
Summary
Biosample
Modifications
Library
21Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens SAFB2ENCBS611PFDENCGM768ERQENCLB519CPM
11Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens SAFB2ENCBS702HBUENCGM768ERQENCLB155FKV