Experiment summary for ENCSR129ROE
doi:10.17989/ENCSR129ROE
Summary
- Status
- released
- Assay
- shRNA knockdown followed by RNA-seq (shRNA RNA-seq)
- Target
- SMN1
- Biosample summary
- Homo sapiens K562 expressing RNAi targeting H. sapiens SMN2
- Biosample Type
- cell line
- Replication type
- isogenic
- Description
- RNA-seq on K562 cells treated with an shRNA knockdown against SMN1. (SMN1_BGKLV24_B)
- Nucleic acid type
- polyadenylated mRNA
- RNA integrity number
- 9.7 [1-1]9.8 [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
- Platform
- Illumina HiSeq 2000
- Controls
Attribution
ENCODE3 project
- Lab
- Brenton Graveley, UConn
- Award
- U54HG007005 (Brenton Graveley, UConn)
- Project
- ENCODE
- External resources
- References
- Aliases
- brenton-graveley:SMN1_BGKLV24_B
- Date submitted
- December 7, 2015
- Date released
- January 12, 2016
- Gene Silencing Series
- ENCSR598HHA
- Tags
Isogenic replicates
Isogenic replicate | Technical replicate | Summary | Biosample | Modifications | Library |
|---|---|---|---|---|---|
| 1 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens SMN2 | ENCBS049ZAC | ENCGM707ZIA | ENCLB215JUZ |
| 2 | 1 | Homo sapiens K562 cell line expressing RNAi targeting H. sapiens SMN2 | ENCBS477MKD | ENCGM707ZIA | ENCLB153FAG |