One thing I'm doing since joining the Tan Lab @ Stanford is working on the computational stack of 3D genome research. I put Dip-C v1.0 out as a release! This is an archive of the original Python 2 code from the single-cell 3D genomes in Science, Nat Struct Mol Biol, and Cell (2018–2023). 🧬

Even more excited — our paper is featured on the cover of Science Advances! Huge thanks to @alexandrejan.bsky.social who took this incredible photo of a ctenophore (aka comb jelly) and the editors. Here’s the cover 👇 www.science.org/doi/10.1126/...

A little late, but there is a fun new chapter in my life! I joined Longzhi Tan's lab at Stanford Neurobiology in November, and am now working on single-cell 3D architecture, neurodegeneration, and aging. Excited to bring a comparative genomics perspective to these topics. 🧬 Tan lab: 3dgeno.me

When you zoom out from individual genes to consider the context of whole chromosomes across animal diversity, animal evolution takes on a different look. Oleg Simakov and I published a review in @annualreviews.bsky.social on topological approaches in comparative genomics. 🧬 doi.org/10.1146/annu...

Final version @nature.com of our paper describing unconventional multicellular development in a choanoflagellate inhabiting an extreme environment. A ton of new data since the first @biorxivpreprint.bsky.social preprint (which we've kept updating). A brief 🧵 (carried over from the old place)

Nature Portfolio@natureportfolio.nature.com · 5mo ago

A study in Nature shows that the single-celled form of a tiny, aquatic organism can turn into a multicellular version by three different routes. The discovery adds insight to the possible origins of multicellular life, suggesting a previously unrecognized degree of flexibility. 🧪

Deleted my data and account. I've had a paid OpenAI account for years. Will be using other tools. LLMs have been fantastic for research and software development, but this is too much.

Mike Masnick@masnick.com · 5mo ago

My goodness.

Our paper on the octopus genome made the cover of G3! 🐙 Congrats to my mentee Dalila Destanović, Eve Seuntjens, and the CNAG team in Barcelona! Photo courtesy of David Stohlmann - a graduate student at the University of Vienna. academic.oup.com/g3journal/ar...