computational genomics, ML & AI in health, professing, kitesurfing, sailing καὶ γνώσεσθε τὴν ἀλήθειαν, καὶ ἡ ἀλήθεια ἐλευθερώσει ὑμᾶς https://ioannidislab.ai
Just got our @genomeresearch.bsky.social article by Margarita Geleta. 📬 I love hard copies...still here's a link genome.cshlp.org/content/36/2... Rita's article was a tour de force of genomic uses for the autoencoder architecture: compression, dim reduction, ancestry, synthetic genomes.
Some data isn't fit for LLMs, esp. many biomedical datasets & anything with spreadsheets. Large Tabular Models (LTMs) are the way to go! Our LTM (iLTM accepted #KDD2026) is now in the dictionary! Thanks @spectrum.ieee.org and @merriamwebster.bsky.social! www.merriam-webster.com/dictionary/t...
Scaling genetic clustering (ADMIXTURE/STRUCTURE-style unsupervised clustering) is now easy. Out in Bioinformatics, our ADAMIXTURE method clusters all of UK Biobank (500k genomes) in just over a hour with likelihoods as good as ADMIXTURE, which would take weeks. doi.org/10.1093/bioi...
ADAMIXTURE: adaptive first-order optimization for biobank-scale genetic clusteringAbstractMotivation. Estimating genetic clusters from sequencing data is a fundamental task in population and medical genetics, enabling demographic inferendoi.orgProud of @carbarjon.bsky.social who just earned her PhD after getting the cover of Nature Medicine earlier this spring! In her study we show clinically relevant allele frequencies can vary regionally across Mexico by more than even between many global populations. www.nature.com/articles/s41...
We are presenting ARGformer tonight at #PEQG26! We released ARGformer this winter (www.biorxiv.org/content/10.6...) bc ARGs are huge & hard to use. ARGformer turns local genealogical paths into tokens & learns dense embeddings, similar to language embeddings, to visualize, clustering, and query.
ARGformer: learning on ancestral recombination graphs with transformersRecent advances in inference of the ancestral recombination graph (ARG), which describes how segments of chromosomes trace back through recombination and shared lineages, have made it possible to reco...www.biorxiv.orgThis matches my experience. The implementation of this system has increased inequality in some cases. Underrepresented groups are underrepresented in getting extra exam time in my classes, imposing an additional burden on those groups, as others shift their exam times forward, chasing the curve.
Financial TimesHow redefining special needs rocked education on.ft.com/4iRbp22 | opinion
"He retired from public performances in the 1970s and focused on teaching. He taught for many years at the University of California, Santa Cruz, splitting his time between there and Cambridge." Tom Lehrer had it all figured out. RIP to one of my heroes. www.npr.org/2025/07/27/8...
Tom Lehrer, influential musical satirist, dies at 97The songwriter and math professor found a following with his satirical political songs.www.npr.org