Experiment summary for ENCSR318OXM
doi:10.17989/ENCSR318OXM
Summary
- Status
- released
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- UPF2
- Biosample summary
- Homo sapiens HepG2 expressing RNAi targeting H. sapiens UPF2
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- shRNA knockdown against UPF2 in HepG2 cells followed by RNA-seq. (UPF2_BGHLV17)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 7.6 [2-1]7.2 [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
- Platform
- Illumina HiSeq 2000, Illumina HiSeq 2500
- Controls
Attribution
ENCODE3 project
- Lab
- Brenton Graveley, UConn
- Award
- U54HG007005 (Brenton Graveley, UConn)
- Project
- ENCODE
- External resources
- References
- Aliases
- brenton-graveley:UPF2_BGHLV17
- Date submitted
- December 13, 2014
- Date released
- December 17, 2014
- Gene Silencing Series
- ENCSR392IZZ
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 2 | 1 | Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens UPF2 | ENCBS237TGJ | ENCGM920LVH | ENCLB774ZJK |
| 1 | 1 | Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens UPF2 | ENCBS713IGS | ENCGM920LVH | ENCLB072LAK |