Pan-cancer CasRx lncRNA Albarossa Library
(Pooled Library #212966)

• Purpose:

  The human CasRx CRISPR lentiviral library encodes 75,725 gRNA arrays (two gRNAs per array) targeting 24,171 lncRNAs. lncRNAs are targeted by 2-7 arrays, depending on the length and other lncRNA characteristics. The library has been designed for its application across solid cancers. Target selection/prioritization for the library is based on lncRNA expression (across 839 solid cancer cell lines), evolutionary conservation, and tissue specificity, thereby reconciling high discovery power and pan-solid-cancer representation with scalable experimental throughput.

• Vector Backbone:

  plentiguide.U6.DR136(CasRX)_stuffer.puro - does not express CasRx

• Depositing Labs: Roland Rad
• Publication: Genome-scale pan-cancer interrogation of lncRNA dependencies using CasRx. Nat Methods (2024). https://doi.org/10.1038/s41592-024-02190-0.

Library Details

• Species: Human
• lncRNAs: 24,171
• gRNAs per element: From 2–7 gRNA arrays (each array encodes 2 gRNAs)
• Controls:
  
  • 900 gRNA arrays targeting 300 essential coding genes (3 arrays per gene)
  • 900 gRNA arrays targeting 300 never essential coding genes (3 arrays per gene)
  • 600 non-targeting gRNA arrays
  • A total of 2400 control gRNA arrays
• Total number of gRNAs: 78,125 gRNA arrays (in total 156,250 gRNAs)
• Lentiviral generation: 3rd

Library Shipping

This library is delivered as suspended DNA in a microcentrifuge tube on blue ice. The tube's contents will not necessarily be frozen. For best results, minimize freeze-thaws.

• Volume: ∼20 µL
• Concentration: 50 ng/µL

Resource Information

• Protocols:
  • gDNA purification for NGS library preparation (PDF, 23 KB)
  • Amplification protocol (PDF, 305 KB)
  • NGS protocol (PDF, 207 KB)
• Depositor Data:
  • Gene targets and gRNA array sequences (XLSX, 6.1 MB)
  • Library distribution (PNG, 54 KB)
  • Library summary (PNG, 57 KB)
• Terms and Licenses:
  • UBMTA

Depositor Comments

The custom pipelines for gRNA arrays quantification from amplicon-seq data and the computational analysis of the CasRx lncRNAs screens are available at Github .