Happy to share our work profiling clonal selection following protein immunizations. We integrated scBCR-seq of polyclonal PC repertoires with expression of ~230 antibodies to map specificity, affinity, and epitope landscape biorxiv.org/content/10.110…

DeepSARS: new tool developed with Tanja Stadler, Oxenius Lab, F. Rudolf, Alex Yermanos and several other great collaborators, we hope to improve #COVID19 diagnostics & early detection of #variants by genomic surveillance of #coronavirus #SARSCoV2 medrxiv.org/content/10.110…

Catch Prof. Sai Reddy's and Dr. Joseph Taft's presentations at #PEGS Europe 2021 in Barcelona. When: today Topic: Predictive profiling of #SARS evolution using #DeepLearning Find us during the poster sessions this afternoon (posters 11,12,13,14). See you there!

Congrats to Joseph Taft for being a poster winner at #PEGSEurope

We are thrilled to join Alloy on its mission of empowering scientific entrepreneurs and democratizing foundational drug discovery capabilities businesswire.com/news/home/2021…

Predictive profiling of SARS-CoV-2 variants by deep mutational learning biorxiv.org/cgi/content/sh… #bioRxiv

It has been 2 years since the 1st detection of #SARSCoV2 and yet the #pandemic shows little signs of slowing down, as seen most recently through the emergence of #omicron and its surprisingly large No. of mutations. How surprising is that though? A thread. biorxiv.org/content/10.110…

As reported in the Economist this summer, it may indeed be possible to predict viral evolution by combining #AI and #ML methods. Check out our latest preprint: biorxiv.org/content/10.110…

Another Omicron neutralization thread, this time about monoclonal antibodies. Once again, massive cred to Daniel Sheward, and everyone else from the previous data release. This time, we also need to especially thank LSSI Reddy (1/n)

Spinoff deepCDR Biologics acquired by Boston-based company Alloy Therapeutics Alloy Therapeutics, Inc. The acquisition of #deepCDR adds expertise in #Bioinformatics and #MachineLearning to Alloy’s #antibody discovery workflow. > bit.ly/3GCaA8Y #ETHspinoff ETH Zurich LSSI Reddy

The lesson: individual mutations cannot predict the behavior of combinatorial mutations. Read more: x.com/ReddyLab_ETHZ/… biorxiv.org/content/10.110… LSSI Reddy

Highlighting our recent work from LSSI Reddy involving the construction of combinatorial RBD libraries that were used to infer and validate ACE2 binding and escape from clinically relevant mAbs. Moving towards in silico prediction of escape for emerging variants🤓

Landing therapeutic genes safely in the human genome wyss.harvard.edu/news/landing-t… via Wyss Institute

Protein engineers work wonders with machine learning, but generating data remains a bottleneck. Computer vision & NLP use data augmentation, but we lack such techniques for proteins. To address this, we develop nucleotide augmentation (NTA). A thread 🧵1/5 biorxiv.org/content/10.110…

Proud to share our *finally* accepted paper. It was a wild ride, but we finally got there on my last day at D-BSSE, ETH Zurich ETH Zürich. Couldn't ask for a better way to finish my time in the LSSI Reddy. cell.com/cell/fulltext/…

Update: Our deep mutational learning #DML paper on #SARSCoV2 profiling is now online at Cell! Now with more in-depth assessments of a greater number of antibodies! cell.com/cell/fulltext/…

Online now: High-throughput T cell receptor engineering by functional screening identifies candidates with enhanced potency and specificity dlvr.it/SZ8Sn6

Sharing our computational immuno ecosystem - started for internal use but might help others too! CRAN package >100 functions (both custom&external tools eg cellphoneDB,projecTILs,alphafold) Database to download&integrate scSeq/VDJ directly into R + ~20 tutorials w/ code,data,text