Educator and Researcher in Artificial Intelligence - Biological Intelligence Tweets are my own. RTs are not endorsements.
Cambridge MA
Joined November 2022
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Yang Shen retweeted
ST-PARM: Pareto-Complete Inference-Time Alignment for Multi-Objective Protein Design biorxiv.org/content/10.64898… #biorxiv_bioinfo
Yang Shen retweeted
Today CZI is announcing an unprecedented new scientific initiative to build the future of AI-powered biology. I am joining CZI to lead this initiative as Head of Science, and the EvolutionaryScale team is joining forces with Biohub.
This is the first large scale scientific effort to combine frontier AI and frontier biology.
I feel an incredible sense of optimism in this moment. There is a path to build predictive models of life that can fundamentally accelerate science, and unlock a new understanding of disease.
biohub.org/blog/frontier-ai-…
Yang Shen retweeted
This paper was a collaborative effort from @marinkazitnik @_michellemli @aydin_wells @GysiDeisy @compbiologist @t_m_murali @pedjagogue @sroyyors @BaudotAnais @bozdags @kapil_devkota_ @anthonygitter @sargoshoe @piehiram @Meng_CS @ziynet_ @koyuturkm @jmuiuc @xanderpico @NatasaPrzulj @benjraphael @anna_m_ritz @StructBioinf @profmonasingh @dkslonim @haiyuanyu @ProfMilenkovic
Yang Shen retweeted
Just published: "Current and future directions in network biology", a comprehensive review by leading experts in the field! Read it here: doi.org/10.1093/bioadv/vbae0… #NetworkBiology #ISCB
Yang Shen retweeted
.@bozdags, Byung-Jun Yoon, @structbioinf, & I led the section on Machine Learning on Networks w/ contributions from Ziynet Nesibe Kesimoglu & @haiyuanyu. Thanks to @marinkazitnik for tons of input.
Yang Shen retweeted
Finally, after ~6 years of work, this is published! genomebiology.biomedcentral.…
Thanks to all my co-authors and the participants of the challenge for seeing this through.
At the beginning of 2018 at an @ENCODE_NIH meeting, the idea for the ENCODE Imputation Challenge was born: an open contest to predict genome-wide genomics experiments given fixed train/test sets and encourage development of large-scale imputation methods.
warning: drama 🧵
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Yang Shen retweeted
It's frustrating reading comp bio articles these days because many keep falling into the same pitfalls. Hard to know if the method actually works, or whether they messed up the evaluation. Here are some issues I've seen recently (w/o names):
Yang Shen retweeted
Multimodal learning of noncoding variant effects using genome sequence and chromatin structure biorxiv.org/cgi/content/shor… #biorxiv_bioinfo