Jakob Troidl
@jakobtroidl.bsky.social
ai scientist @janelia • @harvard cs phd • ml / image analysis / connectomics
Now published - the #BANC! A full central nervous system (CNS) connectome of a limbed animal at single-synapse resolution, enabling us to follow sensory-motor arcs and understand how the CNS controls the body. rdcu.be/fncjS. #neuroscience. Video by @quorumetrix.bsky.social 1/18
I was delighted to contribute to this amazing work lead by @asbates.bsky.social, Lee and Wilson labs, and a village of contributors. This is a monument complete with connections to muscles and proprioceptors which will enable us to simulate of the sensorimotor loops of a brain for the first time!!
Wei-Chung Allen Lee@darbly.bsky.social · 2mo agoNow published - the #BANC! A full central nervous system (CNS) connectome of a limbed animal at single-synapse resolution, enabling us to follow sensory-motor arcs and understand how the CNS controls the body. rdcu.be/fncjS. #neuroscience. Video by @quorumetrix.bsky.social 1/18
Heading to #CVPR2026 in Denver, where we'll present our highlighted poster: "MuViT: Multi-Resolution Vision Transformers for Learning Across Scales in Microscopy" enabling joint processing of local/global views. youtu.be/apFzMgmUUnM Friday 5th, 4pm Poster session 2 #602 Led by @albertdm.bsky.social
MuViT: Multi-Resolution Vision Transformers for Learning Across Scales in Microscopy
YouTube video by Albert Dominguez Mantes
youtu.be
📢 We're recruiting AI Scientists at HHMI Janelia. I'm biased, but these are exceptional opportunities. You'd join as an independent scientist with access to excellent computational infrastructure, some of the best biological data in the world, and a vibrant collaborative environment.
Looking forward to speak at the BioImage Computing Workshop at ECCV in Malmö this year!
Anna Foix@afoix.bsky.social · 2mo ago🔬 One more year! BioImage Computing has been accepted to @eccv.bsky.social 🎉 Show us your work at the intersection of computer vision, ML & biology! Check out our speaker lineup: @arratemunoz.bsky.social, @jakobtroidl.bsky.social & Juliette Griffié 👏 ⏳ Deadline: 13 July ℹ️ www.bioimagecomputing.com
Preprint out arguing that we should build the techology to translate (compile) molecularly annotated connectomes into dynamics. I think this is incredibly important. arxiv.org/abs/2603.25713
📢 Applications are open! This meeting brings together scientists using data-driven #AI to analyze + model neural circuits and uncover how the brain performs complex computations. 🧠 Apply by May 28 ➡️ janelia.news/NAI26 @computingnature.bsky.social @sinzlab.bsky.social @srinituraga.bsky.social
Data-Driven AI for Neuroscience
Organizers Carsen Stringer, HHMI/Janelia Research Campus Srini Turaga, HHMI/Janelia Research Campus Atika Syeda, HHMI/Janelia Research Campus Fabian Sinz, University of Göttingen Alice Wang,
janelia.news
Pleased to share our new paper forthcoming in @icwsm.bsky.social! We introduce a novel framework to measure value expressions in social media posts at scale, leveraging personalization to handle the inherent subjectivity of human values. arxiv.org/abs/2511.08453
Check out @cfusterbarcelo.bsky.social's latest cool work! Domain shift, we are watching you 👀👀👀
Caterina Fuster Barceló@cfusterbarcelo.bsky.social · 5mo agoAre FMs actually FMing? ⛓️🔬 Thrilled to share that our paper on Foundational Models for mitochondria segmentation in EM is heading to the @iclr-conf.bsky.social 2026 LMRL Workshop! 🚀 Check out the full work here: 📄 ArXiv: arxiv.org/abs/2602.08505 📄 OpenReview: openreview.net/forum?id=Bba...
Graph neural networks recover interpretable circuit models from neural activity saalfeldlab.github.io/flyvis-gnn/ @HHMIJanelia @AllenInstitute to be presented at @CosyneMeeting
Looking forward to presenting our work on connectome-constrained modeling at #cosyne2026
Machine Learning in Science@mackelab.bsky.social · 5mo agoFriday, 13:15 (Poster 2-040): @lulmer.bsky.social presents “Neural activity constraints improve task-optimized connectome-constrained models” (joint work with @srinituraga.bsky.social).
In two hours we (with gunnar blohm and jordan matelsky) will run a webinar talking about our philosophy for doing good science and becoming good at science. And the tool planyourscience.com I wrote to help. If you want to join us you can sign up here:t.co/OJOQe1Ly18
Scientific Paper Planner - AI-Powered Research Planning
Structure your scientific research with AI-powered guidance. From hypothesis to methodology, plan your research paper with intelligent mentoring.
planyourscience.com
Made it across the pond to Heidelberg for the AI & Biology conference at EMBL, then Lisbon for COSYNE. Looking forward to catching up with people and talking connectomics, AI for bio-image analysis, and more.
We opened 4 PhD positions at @humantechnopole.bsky.social together with Polimi (see 👇). My lab offers a PhD project on "Computational Morphogenesis": use state-of-the-art machine learning methods together with realistic simulations to build digital twins of developing tissue. Apply by March 26.
Human Technopole@humantechnopole.bsky.social · 5mo ago🎓 How can #AI and #datascience unlock new insights into human health? 📊 We’re offering 4 #PhD positions through Polimi’s DADS Programme in the groups of Emanuele Di Angelantonio, Francesca Ieva, @janfunkey.bsky.social and Fernanda Pinheiro. Apply by 26 March 👉 humantechnopole.it/en/news/4-ph...
From @bdpedigo.bsky.social: a super efficient, highly reliable, and very generalizable method for mesh structure classification, applied here to spine detection across basically every synapse onto a cell in the MICRoNS dataset.
bioRxiv Neuroscience@biorxiv-neursci.bsky.social · 6mo agoA quantitative census of millions of postsynaptic structures in a large electron microscopy volume of mouse visual cortex https://www.biorxiv.org/content/10.64898/2026.02.19.706834v1
Join us in building foundational datasets and models for microscopy with @jakobtroidl.bsky.social and many others AI Engineer Pre-Training: lnkd.in/eyEEV5nm AI Engineer Post-Training: lnkd.in/eShVQ3y9 Data Engineer Data: lnkd.in/eCvm58xH Data Engineer Pipelines: lnkd.in/ec6qGJkX ai.hhmi.org
Accelerating Innovation in Biology
HHMI’s $500 million over the next 10 years will support AI-driven projects and embed AI systems throughout the scientific process in labs across HHMI.
ai.hhmi.org