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Alexander Shakeel Bates

@asbates.bsky.social
259 followers 195 following 58 posts

Fly Neuroscientist and other good things.

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Alexander Shakeel Bates @asbates.bsky.social · 04/09/2026
And now this new beast - the full male fly central nervous system connectome - is out in print! www.cell.com/cell/fulltex... A phenomenal resource, @ukri.org @hhmijanelia.bsky.social, @cellpress.bsky.social
cell.com
Sexual dimorphism in the complete Drosophila male central nervous system connectome
The Drosophila whole male central nervous system connectome enables end-to-end analysis of sensorimotor circuits. Comparison with existing female datasets shows that brain-wide wiring differences betw...
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Greg Jefferis @jefferis.bsky.social · 15/10/2025
Excited to share our new #biorxivpreprint: “Sexual dimorphism in the complete connectome of the Drosophila male central nervous system” www.biorxiv.org/content/10.1... We describe the #connectomics reconstruction and analysis of an entire adult #maleCNS #drosophila central nervous system. 1/10
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Alexander Shakeel Bates @asbates.bsky.social · 04/09/2026
One of the coolest fly neuroscience studies this year. We need to think more about all these understudied links from CNS to body.
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Yichen Luo 骆奕辰 @camellyc.bsky.social · 03/08/2026
1/8 Breathing seems automatic. But it's a finely tuned motor behavior that has to be controlled. In this preprint, I map the circuits that match a fly's respiration to the metabolic demands of flight and mitigate the risk of dehydration. 🧵🪰 www.biorxiv.org/content/10.6...
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Greg Jefferis @jefferis.bsky.social · 27/08/2026
Last week to apply for these posts. This a great time to join this project — every week we’re finding out new and exciting things about the organisation of the mosquito brain — with super collaborators @darbly.bsky.social and @megyounger.bsky.social. Pls share!
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Alexander Shakeel Bates @asbates.bsky.social · 29/07/2026
Now published open-access: www.nature.com/articles/s41... The BANC connectome! Go use it: codex.flywire.ai?dataset=banc
nature.com
Distributed control circuits across a brain-and-cord connectome - Nature
A connectome of the brain and ventral nerve cord of an adult female fruit fly is reconstructed and annotated, providing an open resource that reveals neural control of behaviour to be distri...
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Justin Ellis-Joyce @justinellis-joyce.bsky.social · 09/06/2026
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!!
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Alexander Shakeel Bates @asbates.bsky.social · 09/06/2026
Our thread on the newly published brain and nerve cord #BANC #connectome, and what #neuroscience stories we can tell with it.
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Wei-Chung Allen Lee @darbly.bsky.social · 09/06/2026
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
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Jan Drugowitsch @jdrugowitsch.bsky.social · 09/06/2026
We are excited to have been part of the community effort that led to the Brain-and-Nerve-Cord (BANC) connectome.
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Jan Drugowitsch @jdrugowitsch.bsky.social · 09/06/2026
Please check out @darbly.bsky.social & @asbates.bsky.social 's thread at bsky.app/profile/darb..., or HMS News at hms.harvard.edu/news/researc... for a quick overview, or read the full paper at doi.org/10.1038/s415... for details.
hms.harvard.edu
Researchers Publish First Complete Connectome of Fruit Fly Brain and ‘Spinal Cord’
Open-source resource poised to propel research on how nervous systems work
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openworm.org @openworm.org · 01/05/2026
In 1986, John White published "The Mind of a Worm," the first complete wiring diagram of any animal's brain. 7,000+ synapses in C. elegans, mapped by hand. This year he won the Wiley Prize in Biomedical Sciences. And he's donating his share to OpenWorm.
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Bing Wen Brunton @bingbrunton.bsky.social · 24/03/2026
Some of you saw a preview of this result at my Cosyne talk last week. We may have had too much fun working on this worm-fly model 🤣🤓🤣 (The digital sphinx may be imagery, but the lessons are real.)
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John Tuthill @tuthill.bsky.social · 24/03/2026
🧵 New preprint led by @bingbrunton.bsky.social, @elliottabe.bsky.social, @lawrencehu.bsky.social We gave a worm brain control of a fly body and it walked What did we learn? Nothing, other than deep reinforcement learning is effective We call it the digital sphinx www.biorxiv.org/content/10.6...
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Robert Hart @theroberthart.bsky.social · 18/03/2026
Serious question… is this is a real fly? A startup thinks it's a "real uploaded animal". What do you think? for @theverge.com with @shahabbakht.bsky.social @asbates.bsky.social @anayebi.bsky.social @birchlse.bsky.social @tom-mcclelland.bsky.social www.theverge.com/ai-artificia...
theverge.com
This is not a fly uploaded to a computer
Ceci n’est pas une fly.
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Alexander Shakeel Bates @asbates.bsky.social · 03/11/2025
A small and interesting neural controller for object pursuit on the fly:
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Matt Collie @mottcallie.bsky.social · 03/11/2025
Delighted to share an updated pre-print on how adaptive control in visual pursuit is implemented at the circuit level. New behavior and neuronal data in females (!) shows how two AOTU pathways are key elements in both sexes. Check it out on @biorxiv-neursci.bsky.social : doi.org/10.1101/2025...
doi.org
Specialized parallel pathways for adaptive control of visual object pursuit
To pursue a moving visual object, the brain must generate motor commands that continuously steer the object to the center of the visual field via feedback. The gain of this control loop is flexible, y...
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Alexander Shakeel Bates @asbates.bsky.social · 28/08/2025
We have been answering redditors questions today on the #BANC fly connectome in a public AMA if anyone wants to take a look: www.reddit.com/r/askscience...
reddit.com
From the askscience community on Reddit
Explore this post and more from the askscience community
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Erika Dona @erikadona.bsky.social · 21/08/2025
We integrated our atlas with the connectome using shared features, such as lineage, segment, molecular info (i.e. neurotransmitter, Notch) and neurogenesis timing. We mapped 122 transcriptional pools, each one containing an average of 26 anatomically defined neuron types. 4/8
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sebastiancachero.bsky.social @sebastiancachero.bsky.social · 21/08/2025
With this atlas in place, we mapped sex differences in the atlas and adult connectomes, identifying female-specific apoptosis and transcriptional divergence as drivers of sexually dimorphic development. 7/8
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Erika Dona @erikadona.bsky.social · 21/08/2025
Thanks to all authors and support from #MRC_LMB, @neurohub-cnr.bsky.social , @camzoology.bsky.social , #flyconnectome, @wellcometrust.bsky.social , ‪@erc.europa.eu‬, @astra-zeneca.bsky.social and @cruk-ci.bsky.social. FIN
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Greg Jefferis @jefferis.bsky.social · 21/08/2025
Neuronal diversity is written in transcriptional codes 🧬. But what is the logic of these codes that define cell types and wiring patterns? To find out we built a #scRNAseq developmental atlas of the Drosophila nerve cord and linked it to the #connectome 🪰🧠 #preprint thread ⬇️1/8
ALT text: A UMAP representation of a single cell RNAseq dataset from the Drosophila ventral nerve cord as well as images of the Drosophila nerve cord connectome and different stages of fly development.
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Ben de Bivort @debivort.bsky.social · 20/08/2025
Fly labs — Now is the time to show some solidarity and chip in support for this vital resource!
clip art of Drosophila flies at different life stages
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Alexander Shakeel Bates @asbates.bsky.social · 17/08/2025
The #BANC connectome sample was the best dissection of ~150 by @mindyisminsu.bsky.social! Behaviourally characterised by @debivort.bsky.social lab, microCT used to assess integrity before continuing. Then Minsu and @jasper-tms.bsky.social imaged over ~7 months Details: github.com/jasper-tms/t...
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Minsu Kim @mindyisminsu.bsky.social · 05/08/2025
It’s surreal to think that every neuron and synapse in the fly brain + cord that was dissected almost five years ago (the photo’s still on the lab slack!) is now just a click away on Codex codex.flywire.ai?dataset=banc. This wouldn’t have been possible without the incredible team behind it!
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Alexander Shakeel Bates @asbates.bsky.social · 08/08/2025
The fly #BANC connectome benefits from specialists’ annotations. @ellenlesser.bsky.social‬ helped us annotate wing sensory neurons and ‪@tony-azevedo.bsky.social‬ wing + other motor neurons, see them here!: ng.banc.community/2025a/wing-n... In Codex: codex.flywire.ai/app/search?f...
ng.banc.community
neuroglancer
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Alexander Shakeel Bates @asbates.bsky.social · 07/08/2025
Explore neurons that enter/exit the fly central nervous system by body part with this clickable fly!: codex.flywire.ai/app/body_par... (graphics: @mottcallie.bsky.social‬, tool: Arie Matisliah) Vector graphics! github.com/wilson-lab/s... Effector cells in 3D! ng.banc.community/2025a/effere...
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Alexander Shakeel Bates @asbates.bsky.social · 06/08/2025
For the BANC, ‪@jasper-tms.bsky.social‬ and I have added layers for neurons in other datasets to our neuroglancer environment. Search by name and see your favourite neurons in the same space! See an example here: ng.banc.community/2025a/DNa01-...
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Wei-Chung Allen Lee @darbly.bsky.social · 03/08/2025
How is the nervous system organized to coordinate behavior? To approach this massive question, a team led by @asbates.bsky.social, @jasper-tms.bsky.social, @mindyisminsu.bsky.social, & Helen Yang present the BANC: a Brain and Nerve Cord connectome. Preprint: doi.org/10.1101/2025... 🧪#Neuroskyence
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ellenlesser.bsky.social @ellenlesser.bsky.social · 03/06/2025
So happy to share this project detailing fly wing sensory neurons! I started this project just by asking what the axons of the wing chordotonal organ looked like, and I found many other cool structures along the way.
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Sophia Renauld @sophia-renauld.bsky.social · 04/08/2025
What a joy to work on such an incredibly collaborative project!! Congrats to all who poured time energy and effort into this new resource. (So excited about this that I had to make a bluesky account!)
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Wei-Chung Allen Lee @darbly.bsky.social · 03/08/2025
The dataset includes ~160,000 cells, segmented nuclei and mitochondria, synapses and neurotransmitter predictions, and annotations linking the CNS to peripheral sensory, motor, and visceral systems. Info: banc.community Data: codex.flywire.ai?dataset=banc Viewer: ng.banc.community/view
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Alexander Shakeel Bates @asbates.bsky.social · 02/08/2025
Public access to the first fly connectome that spans the whole CNS - BANC!: codex.flywire.ai?dataset=banc Different from prior connectomes - it is brain + cord (think spinal cord) We use it to ‘embody’ the system and find it resembles ‘subsumption architecture’ doi.org/10.1101/2025...
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Matt Collie @mottcallie.bsky.social · 01/08/2025
Happy Friday! The female adult fly brain-and-nerve-cord (BANC) connectome is now LIVE! Explore the data here: codex.flywire.ai?dataset=banc Check out the preprint here: doi.org/10.1101/2025...
media.tenor.com
a man with a mustache in a blue suit says tiny celebration in front of a group of people
ALT: a man with a mustache in a blue suit says tiny celebration in front of a group of people
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John Tuthill @tuthill.bsky.social · 02/08/2025
The first full central nervous system connectome dataset of an adult fly, with the most comprehensive annotation of sensory and motor neurons to date. A heroic effort with contributions from many groups, a product of the collaborative spirit of the Drosophila neuroscience community.
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Diane Adjavon @adjavon.bsky.social · 15/01/2025
If you want a narrative version of this project, check out our blog post on the newly re-minted Funke Lab website! funkelab.github.io/blog/2024/qu... Thanks to @bobqubit.bsky.social, @asbates.bsky.social, and @jefferis.bsky.social, & @janfunkey.bsky.social for this 🦆ing awesome collaboration! 6/6
funkelab.github.io
What's in a QuAC? | Funke Lab
The Funke lab at HHMI Janelia.
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Alexander Shakeel Bates @asbates.bsky.social · 21/11/2024
With so many new in blue, I thought I would repost this thread about our neurotransmitter prediction across the entire fly brain connectome! Should prove a very useful hypothesis generator for the insect neuroscience community.
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Christie Wilcox @nerdychristie.bsky.social · 03/10/2024
In a fly's brain, there are some 140,000 neurons that connect via 54.5 million synapses. Researchers have now mapped *all of them*. That story and more of the best in Science and science in this edition of #ScienceAdviser: www.science.org/content/arti... 🧪 🧠
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Davi Bock @dddavi.bsky.social · 02/10/2024
And our contribution to FlyWire, cell typing the connectome with @jefferis.bsky.social and colleagues, is here: www.nature.com/articles/s41...
nature.com
Whole-brain annotation and multi-connectome cell typing of Drosophila
Nature - A consensus cell type atlas for the fly brain provides both an intellectual framework and open-source toolchains for brain-scale comparative connectomics.
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Davi Bock @dddavi.bsky.social · 02/10/2024
Hard to overstate how pleased I am that the FlyWire consortium converted our FAFB ("Full Adult Fly Brain") EM volume into a connectome, and that the resulting science has been (and will be) so impactful. Thanks to everyone involved. #neuroscience www.nature.com/immersive/d4...
nature.com
The FlyWire connectome: neuronal wiring diagram of a complete fly brain
Artificial intelligence and human expertise meet to generate a map of all the connections in the fly brain. The resource is already being used by experimentalists and theoreticians to further our unde...
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Alexander Shakeel Bates @asbates.bsky.social · 03/10/2024
Our fly brain connectome papers are now live (www.nature.com/immersive/d4...), and is getting traction (www.bbc.co.uk/news/article...). With ~139k neurons, >8k cell types, synapses annotated, transmitters predicted, ~134 evo-devo units denoted, so much is now possible in the fly.
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Alexander Shakeel Bates @asbates.bsky.social · 19/05/2024
The fly now has a full #connectome, in its most basic form a directed + weighted graph. But what are its connection ‘signs’, excitatory/inhibitory/modulatory? Our new, now published work moves towards this answer, predicting #neurotransmitters from EM! 1/n www.cell.com/cell/fulltex...
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