Barbara Engelhardt

Machine learning, statistical genomics, ML4 health, senior investigator
at Gladstone Institutes, professor at Stanford, single mom to four kids. she/her

[Barbara Engelhardt @BeEngelhardt]

My TEDx talk on the importance of building interpretable, open box machine learning models and using domain-informed detective work to accelerate discovery in genomics, biology, and medicine: https://t.co/3hhGRMqPUs

[Barbara Engelhardt @BeEngelhardt]

Stop by our #NeurIPS2025 poster today! We would love to tell you about our work!! Thanks to @CIFAR_News for the funding that made this work happen.

[Yashas Annadani @yashasannadani]

Excited to present our work on multi-objective scientific discovery at #NeurIPS2025! 🎉

We present Preference-Guided Diffusion, a novel method to sample diverse designs from a diffusion model that corresponds to the Pareto Front of black-box objectives.

Most (if not all) problems in scientific discovery, from drug design to material design, are multi-objective. Balancing factors like toxicity and activity or stability and synthesizability requires finding the optimal Pareto Front of trade-offs. Preference-Guided diffusion uses preference pairs from just an offline dataset to sample optimal designs from a diffusion model.

W/ amazing co-authors @syrineblk, @StefanoErmon, @stefanAbauer, and @BeEngelhardt.

Find out more:

🗓️ Poster #915 | Wednesday | 4:30 PM PST

Pdf: https://t.co/EY1YBoc9hg
Project: https://t.co/qQg3BaJ5xg

[Barbara Engelhardt @BeEngelhardt]

Our neighborhood nonnegative matrix factorization preprint just dropped! Try it out for matrix decomposition and hard clustering for your spatial transcriptomic data! Blue-hued tweetorial: https://t.co/FjSOHW2zk1

[Syrine @syrineblk]

We are extending the deadline for Abstract submission to the 22nd!

[Barbara Engelhardt @BeEngelhardt]

Registration is free! Please join us next month: https://t.co/ah0Cpd6bPe

This in-person workshop is co-organized with @BeEngelhardt, @yashasannadani, @syrineblk and sponsored by @CIFAR_News.

[Barbara Engelhardt @BeEngelhardt]

We have a track of lightning talks for submitted abstracts -- please encourage students and postdocs to submit their best work! Topics are broadly related to experimental design & AI for science, and are outlined in Call For Abstracts (deadline Mar. 15): https://t.co/chwRKSuPvc

[Barbara Engelhardt @BeEngelhardt]

We have an exciting lineup of speakers including David Baker, @jenniferchayes, @Ashia__Wilson, @StefanoErmon, @jlistgarten, @airstreets, @arkrause, @brianltrippe, @yisongyue, @jure and @kchonyc https://t.co/akElZYHYNE

[Barbara Engelhardt @BeEngelhardt]

We’re thrilled to announce the workshop “Experimental Design: AI for Science” happening at Stanford University on 3rd and 4th April 2025. The workshop focuses on theory and methodology of AI-based experimental design and its application to science. https://t.co/cjdM1NdngL

[Barbara Engelhardt @BeEngelhardt]

My NIH Study Section (MABS) was cancelled a little more than 24 hours before the start. With 35 members, & 45 h of reviews/member, that wasted 1575 hours of scientists' unpaid time. @NIH, protect scientists right now & cancel all study sections until you get clarity. @NIHDirector

[Barbara Engelhardt @BeEngelhardt]

Exciting update!! @bioimagearchive.bsky.social is now hosting the first publicly available Incucyte data! If you have live-cell imaging data, please consider uploading to Bioimage Archive!! Thanks to Julia Carnevale and Alex Marson for experimental data —

https://t.co/A8i5P3i9VT

[Barbara Engelhardt @BeEngelhardt]

Please play with these data! There is a lot more signal there. Thank you to @bioimagearchive.bsky.social
for hosting these Incucyte image data -- this is a new thing for them, and they have been so kind in working through the details of submission (link coming soon!)! 🎉

[bianca dumitrascu @bidumit]

Check out our newest preprint on #bioxiv. We developed Patches, a tool for extracting joint and condition specific signatures from scRNA-seq data in complex experimental designs like wound healing:

https://t.co/mVNlDbfevY

GitHub: https://t.co/yg3fQFGZV9

[Barbara Engelhardt @BeEngelhardt]

Feedback welcome! And join us over in the Good Place: @thebeehive.bsky.social

Try out Caliban and Occident on your own Incucyte data! More phenotypes and analyses added regularly.

https://t.co/p9Rx8oYrAT

https://t.co/7uP0vrxXqh

[Barbara Engelhardt @BeEngelhardt]

Our preprint on cellular behavior analysis in TCR T cells & cancer cell live-cell imaging data is out! This 3-year collaboration led by pd Archit Verma w/ Alex Marson & Julia Carnevale, with segmentation & tracking by @davidvv & team!

https://t.co/TYMrUPBBl5

[Barbara Engelhardt @BeEngelhardt]

Please play with these data! There is a lot more signal there. Thank you to @bioimagearchive.bsky.social
for hosting these Incucyte image data -- this is a new thing for them, and they have been so kind in working through the details of submission (link coming soon!)! 🎉