assistant professor @mskcancercenter.bsky.social
clareaulab.com
Caleb Lareau
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We promise that GIFT is something that you're going to want to unwrap soon-- we've been floored by how well this method works. Check out the preprint to learn more! www.biorxiv.org/content/10.6... 8/n
It's cool to see we aren't the only ones that think rationally designed probes + gapfilling is the future. Check out a corroborating workflow from @mgrillo.bsky.social, @lgmartelotto.bsky.social, Anna Nam, and colleagues: bsky.app/profile/mgri... 7/n
I lied-- here's a fourth thing you should know. GIFT is fully loaded and ready to go in your lab.
> The experimental protocol is fully open-sourced.
> We have 3 git repos for probe design, parsing, and downstream analyses
> We've validated it in primary samples and preserved FFPE tissues 6/n
3. This design enables genotyping hundreds of loci in individual cells at an accuracy much higher than other workflows for genotyping off of flex. GIFT simply works incredibly well. 5/n
2. GIFT builds on the 10x Genomics Flex kit, enabling a multi-step combinatorial barcoding that scales cell capture for genotype-to-phenotype mapping by ~an order of magnitude. 4/n
The three things you need to know:
1. GIFT uses short DNA probes to enable genotyping anywhere in a transcript and reads out potential mutations with a short 'gapfilling' reaction between adjacent probes. 3/n
