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Marius Pachitariu

@marius10p

running a lab @HHMIJanelia,
data (neuro) scientist, visual cortex, large-scale recordings
#Kilosort, #Suite2p, #Cellpose
Janelia Research Campus mouseland.github.io Joined December 2011
1.2K Following 6.5K Followers 2.4K Posts

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Marius Pachitariu @marius10p
Liked this story? Come work with us on the next one! Positions open: janelia.org/lab/pachitariu…
Story: 1. Neurons in the brain are very chatty: they fire action potentials, their basic unit of communication, even when there is nothing to communicate. For example in this video, in visual cortex recordings in complete darkness. Lots of chatting:
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Marius Pachitariu @marius10p
Read about our experience and that of others in building software for biology. #kilosort #suite2p #cellpose #facemap #rastermap
Six tips for going public with your lab’s software: nature.com/articles/d4158…
1) make time for maintenance
2) simplify installation
3) add a GUI or good CLI
4) good documentation
5) use github/git
6) automated testing
Any other tips people have?
#OpenScience #OpenSource
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Marius Pachitariu @marius10p
#Kilosort and #Suite2p applied to human loop organoids. Great new work from @Sergiu_P_Pasca and team.
Sergiu P. Pasca Verified account @Sergiu_P_Pasca Oct 15, 2024
Today we introduce human neural loop #assembloids created from 4 parts derived from stem cells to study the cortico-striato-midbrain-thalamo-cortical pathway and to model neurodevelopmental disease

Work led by the remarkable Ji-Il Kim
and Yuki Miura in the lab. Also in collaboration with the @marius10p lab at @HHMIJanelia

Video shows a four-part neural assembloid displaying emergent synchronized activity after a couple of hundred days of integration
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Marius Pachitariu @marius10p
Work with us an AI scientist or engineer, apply now!
✨ We’re excited to announce that we’re recruiting scientists for AI@HHMI, our new $500 million initiative to embed AI systems throughout every stage of the scientific process. 🖥️

🔗 Check out the first of our open positions & apply today ➡️ai.hhmi.org/#join-our-team
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Marius Pachitariu @marius10p
Every neuron in V1 is like a mini neural network. Surprisingly little shared structure between neurons.
🚨Preprint‼️
1/ Predicting neural activity is notoriously difficult and requires complicated models. Here we develop simple “minimodels” which explain 70% of neural variance in V1! 🐭🐒 #neuroai @computingnature @marius10p @NunezKant
Paper: biorxiv.org/content/10.110…
Recording 🔬 :
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