Should I use multiple gRNA transfections (Donor) mixed as well as one by one along with a Cas9 plasmid to see which gRNA is working, or start with only 1 gRNA at a time?

Options:

  • 1 gRNA + Cas9 (1 gRNA + Cas9 set only)
  • Multiple gRNAs + Cas9 (2-3 gRNA plasmids + Cas9 plasmid transfection; all combined)
  • 1 gRNA + Cas9 (1 gRNA + Cas9; 4-5 gRNA and Cas9 each set separate transfection, and one of them may work)
    • or I can use all in one Addgene plasmids and follow 2-3 gRNA-Cas9 plasmids transfection in one go as well as one by one, as per above strategy.

    Addgene options I found for all in one plasmids are pSpCas9(BB)-2A-GFP (PX458) and pX330-U6-Chimeric_BB-CBh-hSpCas9.

    Which Addgene plasmids for the Cas9 would be ideal for any gene? I can clone only the gRNA sequence in the donor plasmid (Addgene) or order from a supplier. For gRNA, can I use any commercial or addgene cloned plasmids (please share a link)? What website do you believe would be the best to get the gRNA for the gene of interest?

    • For gRNA design and selection, which one would be best? CRISPOR (http://crispor.tefor.net/), CHOPCHOP (https://chopchop.cbu.uib.no/), or E-CRISP (http://www.e-crisp.org/E-CRISP/).

    Please help with the making this decision if you have experience with these experiments and what would be the best path to go with.

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