The RNAi Consortium (TRC) Lentiviral shRNA Gene Family and Pathway Libraries

Pre-defined libraries of TRC shRNA targeting human and mouse genes grouped by families or function and arrayed in 96-well plates
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The TRC shRNA constructs were designed using an siRNA-rules based algorithm consisting of sequence, specificity, and position scoring for optimal hairpins. Human and mouse clone collections are compiled into libraries for gene families and pathways.
  
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The RNAi consortium (TRC) is a collaborative effort based at the Broad Institute of MIT and Harvard, and includes six MIT and Harvard associated research institutions and five international life sciences organizations. We have partnered with the TRC to make the shRNA libraries, which are available to researchers worldwide, and to compile shRNA libraries for popular gene families and pathways.

The pLKO.1 reagents can be packaged into virus particles for use in transduction experiments. Specifically, the replication-incompetent viral particles can be efficiently produced using lentiviral packaging plasmids co-transfected in 293T packaging cells. The Trans-Lentiviral packaging system, which offers maximum biosafety and high titers, is recommended.

Highlights

  • 9 different shRNA subset libraries available for popular gene families and pathways
  • Already cloned into lentiviral vectors
  • Amenable to in vitro and in vivo applications, such as the creation of stable knockdowns
  • Lentiviral vector enables transduction of primary and non-dividing cell lines Further information is available at http://www.broad.mit.edu/genome_bio/trc/rnai.html

Human TRC gene families and pathways

Gene Ontology (GO) annotated collections targeting all genes in a particular gene family or biological pathway have been created from the human TRC lentiviral shRNA library. These arrayed sets contain all shRNA from the human TRC lentiviral shRNA library that target genes falling under specific GO terms. These collections will greatly simplify pathway analysis, target identification, and validation.

Available gene family and pathway sets

Gene Family

# Genes

# Constructs

Angiogenesis

117

606

Apoptosis

763

4037

Cell Cycle

768

4229

GPCRs

549

2732

Kinases

781

4518

Phosphatases

164

817

Transcription Factors

852

4330

Ubiquitins

145

737

Ubiquitin-Ligases

350

1769

GO annotations are applied to genes by curators within the Gene Ontology Consortium and do not originate from us. Consult the Gene Ontology website for details.

Citing the library in Scientific Publications

In scientific publications, the libraries should be referred to as TRC-Hs1.0 (Human) and TRC-Mm1.0 (Mouse). Individual clones are uniquely identified by their TRC ID number (eg. TRCN0000014783).

  
HazardousNo
Shelf Life12 Months
Shipping ConditionDry Ice
Storage Condition-80 C
The TRC lentiviral shRNA libraries are provided in 96-well microtiter plates containing frozen stock cultures of E. coli in 2XLB broth with 8% glycerol and carbenicillin (100 µg/mL). We check all cultures for growth prior to shipment. Individual shRNA constructs are shipped as glycerol stock cultures on wet ice.
TRC pLKO.1 lentiviral vector

TRC pLKO.1 lentiviral vector

TRC pLKO.1 lentiviral vector


Gene silencing with TRC lentiviral shRNA

Gene silencing with TRC lentiviral shRNA

Gene silencing with TRC lentiviral shRNA


References

  1. J. Moffat et al., A Lentiviral RNAi Library for Human and Mouse Genes Applied to an Arrayed Viral High-Content Screen. Cell. 124, 1283-1298 (2006).
  2. S. A. Stewart et al., Lentivirus-delivered stable gene silencing by RNAi in primary cells. RNA. 9, 493-501 (2003).
  3. R. Zufferey et al., Multiply attenuated lentiviral vector achieves efficient gene delivery in vivo. Nat. Biotechnol. 15, 871-885 (1997).
  4. R. Zufferey et al., Self-inactivating lentivirus vector for safe and efficient in vivo gene delivery. J. Virol. 72, 9873-9880 (1998).
  5. T. Yamamoto, Y. Tsunetsugu-Yokota, Prospects for the therapeutic application of lentivirus-based gene therapy to HIV-1 infection. Curr. Gene Ther. 8(1), 1-8 (2008).

Citations