Designs CRISPR protospacers to target single nucleotide polymorphisms with base editors (ABE / CBE). Input required is an rsID or a txt file with rsIDs on each line. https://baglaenkolab.shinyapps.io/snpGuide/ | https://github.com/ybaglaenko/snpGuide
Designs CRISPR protospacers to target or preserve HLA alleles. Example: Ablate HLA-B*27:05 while preserving HLA-B*07:02. It includes plotting, efficiency calculations based on deep learning, and off-target predictions.
A functioning alpha version of HLAguide is available online and hosted by CCHMC.
As part of a larger manuscript - we have deposited all analysis codebooks and the full experimental protocol for this work. This is a single cell analysis of genomic DNA amplicons, 3’ RNA sequencing, and ADT sequencing. https://github.com/immunogenomics/craft-seq https://www.protocols.io/view/craftseq-dm6gpz8ojlzp/v2