Assistant Investigator at Allen Institute for Brain Science. Formerly Janelia, Universität Zürich, and U Mich Physics.
Building bottom-up insight into the brain from synaptic resolution connectomics and making computational tools to help you do that too.
RFK: "There's five hundred million Arabs in the world. And yet they don't produce science. They don't win the Nobel Prize. They don't win the Fields Prize. They don't win the Wolf Prize. They don't produce literature."
Applications are now open for the San Juan Winter School 2027 on Connectomics and Brain Simulation!
Join us to learn how to analyze and simulate connectomes.
sjcabs.com
I know this isn’t a new thought, but so many people at the NIH do such vital and transformative work under the most difficult and uncertain conditions, it makes me so angry that this feckless coward coopts the respect those people have earned to lie again and again and again.
Rand Paul--who doesn't believe in evolution--holding a hearing of Dr. Fauci--a retired, life-long public servant-- while we are *actively* in the midst of SEVERAL disease outbreaks due to unnecessary public health cuts and corporate lobbying shows exactly how unserious Republicans are.
Not coincidentally in a period where VC and billionaires are poaching researchers to do connectomics in private, for (in my view) tenuous connections to building AI products.
Building a "moonshot infrastructure" to map connections in mammalian brains features among the recommendations from the White House report on U.S. scientific priorities released earlier this week. Neuroscientists weigh in.
By @sarahthau.bsky.socialwww.thetransmitter.org/policy/neuro...
I am impressed that I can describe a half-remembered neuroscience paper to Claude, getting a few details wrong and with no authors mentioned, and so far it is 2/2 at both finding the right paper and correcting my recollection.
Functional Logic of a Cognitive Brain System for Navigation
A fascinating review of the Drosophila head-direction system by Gaby Maimon and Larry Abbott
#neuroskyence#compneuro
Interneuron aficionados — is there any published record of supernumerary axons in wild type cortical interneurons in vivo? They aren't as rare as I would have imagined...
I'm enjoying the heck out of the World Cup this year, in no small part because every game is happening during my waking hours. But a surprise bonus is how nice it is that every stadium has been stripped of its stupid corporate sponsor name for a few weeks.
The glass fish as model organism seems really cool, but the exclusivity is bizarre to me for so many reasons and a downer to see the promised model of overlapping 15 year topics with take an ironically non-transparent left turn.
HHMI’s Janelia Research Campus will close two of its programs dedicated to rodent work, @thetransmitter.bsky.social has learned. #neuroskyence
By @callimcflurry.bsky.socialwww.thetransmitter.org/community/ex...
Also, when I was there, small lab sizes but a common organism and tools made labs quite focused and adjacent but non-overlapping in their fundamental work, making it easy to celebrate all successes. Everyone doing glassfish whole brain imaging has me wary there will be more toes to step on.
The glass fish as model organism seems really cool, but the exclusivity is bizarre to me for so many reasons and a downer to see the promised model of overlapping 15 year topics with take an ironically non-transparent left turn.
HHMI’s Janelia Research Campus will close two of its programs dedicated to rodent work, @thetransmitter.bsky.social has learned. #neuroskyence
By @callimcflurry.bsky.socialwww.thetransmitter.org/community/ex...
Group leaders will land fine, but morale during this transition at the institute is going to be rough. I also worry reduce the impact of the wonderful visitors program and the conference program.
My hot take is that not only should we have additional congressional districts, but there should also be psuedodistricts based on things other than geography. Age ranges, gender, income ranges. Each person should have several representatives who each represent different facets of people.
Buttigieg: We sit in a in a country that's got the wrong number of people on the Supreme Court, possibly the wrong number of representatives in the House of Representatives. And by the way, when you consider the disenfranchisement of the people of DC, we have the wrong number of states in the US
Seeing discussion elsewhere about whether The Rich should be able to access public services for free even tho they're rich, and like, why are we so focused on whether people "deserve" things?
Looking forward to heading off to Cosyne next week, and excited to be part of a two day workshop about connectomics, with day one being about species comparison and day two about using data for constraining models. alleninstitute.github.io/connectomics...
This seems important when thinking about all of the people (especially academics) who stayed in Epstein's orbit. Not that all would agree in the details per se, but that they were not repulsed by deeply held misogyny, expressed in so many different ways
Epstein responds in the affirmative, insisting "no really smart women---none." Schank, in turn, admits that his "very best Phd student was female," but laments that she "decided to quit being a professor," adding "that is the point; no matter how smart, she wanted to be liked or some such crap."
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.
A 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
There are lessons from WaPo’s destruction for science too.
Public funding (via NIH, NSF &c) built in the US a science superpower in large part b/c of democratic values: agencies are accountable to the public through Congress, not controlled by whims of a billionaire. Autocratic control…
I personally do not think some rich man should be able to buy an institution like this like a toy and then break it when he doesn’t want to play with it anymore. bsky.app/profile/benm...
I would love to organize a conference bringing together neuroscientists, video game developers, and VFX artists. Visualization, spatial methods, understanding of body mechanics, they all have different perspectives on some similar problems.
This video on Avatar 2/3 reignited this feeling: youtu.be/ueJTdtmZ5R4?.... Weta Workshop wanted to transfer actor faces to CGI Na'vi faces, which have different facial structure. So they built an anatomically inspired facial muscle model and fit it using gaussian splat meshes from video.
So that gives them predicted muscle activations for any actor footage, which they can transfer to the equivalent but distinct muscle array under a Na'vi facial mesh. Also, there's some interesting bits in there about the difference in modeling muscles in soft tissue rather than hard joints.
The last year has been a real lesson in what Orwell meant. So much energy goes into obfuscating and downplaying basic facts, since to say them clearly makes the stupidity and cruelty black and white. The second ICE murder seems to have finally broken through that a little bit.
Excited for the publication of our recent work on how pyramidal cells shape the identity of interneurons in the Cortex! Big shout out to @artofbiology and Sherry Jingjing wu! www.nature.com/articles/s41...
Please apply. Amazing opportunity to dive into connectomics datasets for research, educational initiatives, outreach and whatever else your heart desires. Feb 2nd deadline.
Teach neuroscience to undergraduates? Learn how to incorporate our connectomics data into your courses!
🧠 "Incorporating open connectomics data into teaching neuroscience"
🗓️ July 23-24
🛫 Travel funds available
⏳ Apply by Feb. 2: https://bit.ly/3LAfOdy#neuroskyence
Back in 2010, I moved to Zürich with two suitcases. I knew no one there, but was tremendously lucky in that the other postdoc in my group at the time was this fellow named Mark. Within the first day or two, he invited me out to watch a World Cup game at one of the many outdoor bars there.
I wish more people could have known him. Goodbye Mark, and thank you for so many good times, excellent board game sessions, and fascinating conversations.
Just to link to science, if you have used CATMAID to look at neural circuits in the fly or the larva, he laid the groundwork for the reconstruction and exploration you see today.
Back in 2010, I moved to Zürich with two suitcases. I knew no one there, but was tremendously lucky in that the other postdoc in my group at the time was this fellow named Mark. Within the first day or two, he invited me out to watch a World Cup game at one of the many outdoor bars there.
Soon we became good friends. When the lab moved, he moved back to England and build digital tools for improving civil society. After many years, I saw him in London over lunch last year and caught up too briefly. Devastatingly, not even two weeks ago I found out that he was very sick...
... and he passed away last weekend. I'm so glad that I was able to see him (which I hoped was the first of many times), Especially amidst all the bullshit right now it's just so upsetting that a kind, thoughtful person who was a benefit to the world and all those who knew him is gone far too soon.
SKULL OF THOMAS AQUINAS: TAKE A LEFT NOW
PRIEST: No, the GPS says we have to keep going—
SKULL: I KNOW A SHORTCUT
PRIEST: Do you remember the last ti—
SKULL: FOR THOSE WITH FAITH, NO EVIDENCE IS NECESSARY; FOR THOSE WITHOUT IT, NO EVIDENCE WILL SUFFICE
Connectomics has a great presence here, with several instructors from our team! Apply if you want hands on training and feedback on working with cortical connectomics (and whatever else we might have available by then...)!
Applications are open for our Summer Workshop on the Dynamic Brain in the San Juan Islands!
🧠💻 Perfect for PhD students and postdocs interested in developing their computational neuroscience skillsets.
More info: https://alleninstitute.org/events/summer-workshop-on-the-dynamic-brain-2026/
Our Method of the Year 2025 is...drumroll please...EM-based connectomics!!
Our Editorial introduces our choice and highlights six Comments and other related content in this special issue. Please join us in celebrating EM-based connectomics! 🎉🧠🔬
www.nature.com/articles/s41...
The thing I love about No Kings as a theme and as practice is it cuts to the heart of it: this admin is a nonstop flood of the most unamerican bullshit and to wave the American flag is to protest.
I love this piece!
It shows the many ways a connectome can be put to use, AND the many complementary modalities that are needed, beyond the connectome, to answer real questions.
And it makes me feel good about having helped to generate the thing. :)
To celebrate the first anniversary of the release of FlyWire, we asked nine neuroscientists to share how they are using connectome data in their research and what they hope is in store for the future of fly connectomics.
By @franciscorr25.bsky.social#neuroskyencebit.ly/3Wx5nt3
Calling out political extremists for being hypocritical (“they claim to value free speech, but actually try to censor speech they don’t like!”) is like calling out a football team for playing both offense and defense. They’re not trying to embody fixed standards, they’re just trying to win.
Here's a question:
With EM, you find a super weird cell type (n=2 animals). They have truly unusual characteristics, but it's structure only so you have no idea what they do, what their transcriptomic/molecular properties are, nor do obviously solve any problem that's been posed.
However, the unusual structure makes them clearly doing something specific and atypical, and at least they interact with circuits many people care about.
Do you invest the time to write it up as a description, even without a satisfying conclusion?