Experiment summary for ENCSR689MIY
doi:10.17989/ENCSR689MIY
Summary
- Status
- released
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- UPF1
- Biosample summary
- Homo sapiens HepG2 expressing RNAi targeting H. sapiens UPF1
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- RNA-seq on HepG2 cells treated with an shRNA knockdown against UPF1. (UPF1_BGHLV33)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 9.9 [2-1]9.8 [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
- ENCSR358OMW
- Platform
- Illumina HiSeq 2500
- Controls
Attribution
ENCODE3 project
- Lab
- Brenton Graveley, UConn
- Award
- U54HG007005 (Brenton Graveley, UConn)
- Project
- ENCODE
- External resources
- References
- Aliases
- brenton-graveley:UPF1_BGHLV33
- Date submitted
- September 24, 2016
- Date released
- September 29, 2016
- Gene Silencing Series
- ENCSR300WFS
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 2 | 1 | Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens UPF1 | ENCBS344ZTY | ENCGM925TIQ | ENCLB207TJI |
| 1 | 1 | Homo sapiens HepG2 cell line expressing RNAi targeting H. sapiens UPF1 | ENCBS018RXG | ENCGM925TIQ | ENCLB694GHZ |