Our crisprVerse paper is out in @NatureComms. We developed a one-stop shop CRISPR gRNA design tool that works with any nuclease and genome, and includes functionalities for CRISPRko, CRISPRa, CRISPRi, base editing, and RNA-editing. nature.com/articles/s41467-0…

This cannot not remind me of this. #HandmaidsTale

as well as CRISPRa and CRISPRi applications

and RNA-targeting nucleases such as CasRx

and then show how our modular approach can easily create rich annotations for different CRISPR modalities using public data. This includes base editing

We first introduce a data container for gRNAs, the GuideSet:

Fleet week #FleetWeekSF

Barely

Something happened in February – at San Francisco, CA

You would think in 2020 airlines would allow hyphens... #westjet

Finally we show that genetic variation, eg SNP, can influence knockout efficiency as a result of introducing variation in the sgRNA:gDNA binding.

For instance a subset of melanoma cell lines (expressing SOX10, but not expressing SOX9) appear to be sensitive to SOX9 knockout because of off-targets to SOX10

Then we show that off-targets caused by single-mismatch and double-mismatch in the sgRNA:gDNA binding can lead to an incorrect estimation of cancer vulnerabilities when not taken into account

We first show that multi-target guides (guides with several on-targets, for instance paralog genes) are hard to model and should be interpreted with caution because of possible genetic interactions between the on-targets.

This warms up my heart! @jhubiostat. Happy Holidays!

Happy Friday Bay Area. #thisisnotkarl

From the CERES paper:

From this paper: