Platform Overview
The Genetic Perturbation Platform, formerly known as the RNA interference (RNAi) Platform, supports functional investigations of the mammalian genome that can reveal how genetic alterations lead to changes in phenotype.
GPP develops technologies for perturbing genes and assists collaborators in experimental planning and execution by helping choose the best model system and experimental readout to assess the effects of genetic perturbation. Technologies include libraries of short hairpin RNAs (shRNAs), CRISPR/Cas9 constructs, and open reading frames (ORFs) to knock down or overexpress genes, in addition to other techniques such as TALEN and CRISPR/Cas9 for genome editing and "tough decoy" constructs to inhibit microRNAs.
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Design Tools
- CRISPick (GPP sgRNA Designer)
- Design sgRNA sequences for CRISPRko/a/i targets
- Design Hairpins for a Target Transcript Sequence (RNAi)
- Generate matching shRNA designs for a transcript sequence
Informational Resources and Downloads
- Protocols
- Protocols including clone, DNA, and virus production
- Library Resources
- Clone inventory downloads
- Pooled Screening File Downloads
- For file downloads for analysis of pooled screens, see our Clone Pool section.
Analysis Tools
- Pooled Screen Analysis Guide
- Guidance on reading PoolQ files, assessing screen quality and hit calling
- Pooled Screening File Downloads
- For file downloads for analysis of pooled screens, see our Clone Pool section.
- Pooled Screen Analysis Tool
- Hypergeometric or Negative Binomial Analysis
- Software Tool Downloads
- Software tools and related resources for screen analysis
Reagents
- Available Libraries
- Description of available clone pools with provided analysis downloads
- Vectors
- Description of vectors, maps and sequences