#connectomics — Public Fediverse posts

📰 "Multisensory learning recruits visual neurons into an olfactory memory engram"
https://arxiv.org/abs/2604.28007
#Connectomics
#Drosophila #Q-Bio.Nc #Sensory

📰 "Multisensory learning recruits visual neurons into an olfactory memory engram"
https://arxiv.org/abs/2604.28007
#Connectomics
#Drosophila #Q-Bio.Nc #Sensory

📰 "Multisensory learning recruits visual neurons into an olfactory memory engram"
https://arxiv.org/abs/2604.28007
#Connectomics
#Drosophila #Q-Bio.Nc #Sensory

📰 "Multisensory learning recruits visual neurons into an olfactory memory engram"
https://arxiv.org/abs/2604.28007
#Connectomics
#Drosophila #Q-Bio.Nc #Sensory

📰 "Cross-Platform Neurotransmitter & Alias Ambiguity for OA-AL2b1 and OA-AL2b2 Neurons in Drosophila melanogaster"
https://doi.org/doi:10.1007/s12021-026-09783-4
https://pubmed.ncbi.nlm.nih.gov/42043632/
#DrosophilaMelanogaster
#Connectomics
#Drosophila

📰 "Cross-Platform Neurotransmitter & Alias Ambiguity for OA-AL2b1 and OA-AL2b2 Neurons in Drosophila melanogaster"
https://doi.org/doi:10.1007/s12021-026-09783-4
https://pubmed.ncbi.nlm.nih.gov/42043632/
#DrosophilaMelanogaster
#Connectomics
#Drosophila

📰 "Cross-Platform Neurotransmitter & Alias Ambiguity for OA-AL2b1 and OA-AL2b2 Neurons in Drosophila melanogaster"
https://doi.org/doi:10.1007/s12021-026-09783-4
https://pubmed.ncbi.nlm.nih.gov/42043632/
#DrosophilaMelanogaster
#Connectomics
#Drosophila

📰 "Cross-Platform Neurotransmitter & Alias Ambiguity for OA-AL2b1 and OA-AL2b2 Neurons in Drosophila melanogaster"
https://doi.org/doi:10.1007/s12021-026-09783-4
https://pubmed.ncbi.nlm.nih.gov/42043632/
#DrosophilaMelanogaster
#Connectomics
#Drosophila

2+2 years position for a software engineer / data scientist with serious programming chops in my lab at the #MRCLMB to develop tech for #connectomics and #neuroscience :

https://fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com/hcmUI/CandidateExperience/en/sites/UKRI-Careers/job/2250

Please do share with suitable candidates, and feel free to reach out via email to discuss details.

Deadline for application: May 10th.

Starting date: any within 2026.

Requires Masters plus industry experience, or a PhD in a suitable field – and demonstrable experience in software engineering.

Please help disseminate – either here or by copy-pasting onto emails or messages. Thank you!

#PhDJobs #neuroscience #SoftwareEngineering #jobs #ScienceJobs

2+2 years position for a software engineer / data scientist with serious programming chops in my lab at the #MRCLMB to develop tech for #connectomics and #neuroscience :

https://fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com/hcmUI/CandidateExperience/en/sites/UKRI-Careers/job/2250

Please do share with suitable candidates, and feel free to reach out via email to discuss details.

Deadline for application: May 10th.

Starting date: any within 2026.

Requires Masters plus industry experience, or a PhD in a suitable field – and demonstrable experience in software engineering.

Please help disseminate – either here or by copy-pasting onto emails or messages. Thank you!

#PhDJobs #neuroscience #SoftwareEngineering #jobs #ScienceJobs

2+2 years position for a software engineer / data scientist with serious programming chops in my lab at the #MRCLMB to develop tech for #connectomics and #neuroscience :

https://fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com/hcmUI/CandidateExperience/en/sites/UKRI-Careers/job/2250

Please do share with suitable candidates, and feel free to reach out via email to discuss details.

Deadline for application: May 10th.

Starting date: any within 2026.

Requires Masters plus industry experience, or a PhD in a suitable field – and demonstrable experience in software engineering.

Please help disseminate – either here or by copy-pasting onto emails or messages. Thank you!

#PhDJobs #neuroscience #SoftwareEngineering #jobs #ScienceJobs

2+2 years position for a software engineer / data scientist with serious programming chops in my lab at the #MRCLMB to develop tech for #connectomics and #neuroscience :

https://fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com/hcmUI/CandidateExperience/en/sites/UKRI-Careers/job/2250

Please do share with suitable candidates, and feel free to reach out via email to discuss details.

Deadline for application: May 10th.

Starting date: any within 2026.

Requires Masters plus industry experience, or a PhD in a suitable field – and demonstrable experience in software engineering.

Please help disseminate – either here or by copy-pasting onto emails or messages. Thank you!

#PhDJobs #neuroscience #SoftwareEngineering #jobs #ScienceJobs

2+2 years position for a software engineer / data scientist with serious programming chops in my lab at the #MRCLMB to develop tech for #connectomics and #neuroscience :

https://fa-evzn-saasfaukgovprod1.fa.ocs.oraclecloud.com/hcmUI/CandidateExperience/en/sites/UKRI-Careers/job/2250

Please do share with suitable candidates, and feel free to reach out via email to discuss details.

Deadline for application: May 10th.

Starting date: any within 2026.

Requires Masters plus industry experience, or a PhD in a suitable field – and demonstrable experience in software engineering.

Please help disseminate – either here or by copy-pasting onto emails or messages. Thank you!

#PhDJobs #neuroscience #SoftwareEngineering #jobs #ScienceJobs

📰 "Sensory-motor integration in a nonspiking interneuron contributes to active sensor control in Drosophila"
https://www.biorxiv.org/content/10.64898/2026.04.16.718965v1?rss=1
#Connectomics
#Drosophila #Behaviour #Sensory

📰 "Sensory-motor integration in a nonspiking interneuron contributes to active sensor control in Drosophila"
https://www.biorxiv.org/content/10.64898/2026.04.16.718965v1?rss=1
#Connectomics
#Drosophila #Behaviour #Sensory

📰 "Sensory-motor integration in a nonspiking interneuron contributes to active sensor control in Drosophila"
https://www.biorxiv.org/content/10.64898/2026.04.16.718965v1?rss=1
#Connectomics
#Drosophila #Behaviour #Sensory

📰 "Sensory-motor integration in a nonspiking interneuron contributes to active sensor control in Drosophila"
https://www.biorxiv.org/content/10.64898/2026.04.16.718965v1?rss=1
#Connectomics
#Drosophila #Behaviour #Sensory

📰 "A central somatotopic map of the fly leg supports spatially targeted grooming"
https://doi.org/doi:10.1016/j.cub.2026.03.045
https://pubmed.ncbi.nlm.nih.gov/41966690/
#Sensorimotor
#Connectomics
#Drosophila

📰 "A central somatotopic map of the fly leg supports spatially targeted grooming"
https://doi.org/doi:10.1016/j.cub.2026.03.045
https://pubmed.ncbi.nlm.nih.gov/41966690/
#Sensorimotor
#Connectomics
#Drosophila

📰 "A central somatotopic map of the fly leg supports spatially targeted grooming"
https://doi.org/doi:10.1016/j.cub.2026.03.045
https://pubmed.ncbi.nlm.nih.gov/41966690/
#Sensorimotor
#Connectomics
#Drosophila

📰 "A central somatotopic map of the fly leg supports spatially targeted grooming"
https://doi.org/doi:10.1016/j.cub.2026.03.045
https://pubmed.ncbi.nlm.nih.gov/41966690/
#Sensorimotor
#Connectomics
#Drosophila

@tuthill

If interested in this topic, Prof. Bing Brunton gave a talk at #Cosyne2026 which is very much worth watching:

https://youtu.be/yhUBq5R01qA?t=3430

Among other topics, Bing presents the minimal network for the oscillatory behaviour that sustains walking, and also the embodiment of a connectome by plugging it into a virtual mechanical model of the fly, #MuJoCo from the #AnyBrain #HHMIJanelia project team.

#neuroscience #Drosophila #connectomics

@tuthill

If interested in this topic, Prof. Bing Brunton gave a talk at #Cosyne2026 which is very much worth watching:

https://youtu.be/yhUBq5R01qA?t=3430

Among other topics, Bing presents the minimal network for the oscillatory behaviour that sustains walking, and also the embodiment of a connectome by plugging it into a virtual mechanical model of the fly, #MuJoCo from the #AnyBrain #HHMIJanelia project team.

#neuroscience #Drosophila #connectomics

@tuthill

If interested in this topic, Prof. Bing Brunton gave a talk at #Cosyne2026 which is very much worth watching:

https://youtu.be/yhUBq5R01qA?t=3430

Among other topics, Bing presents the minimal network for the oscillatory behaviour that sustains walking, and also the embodiment of a connectome by plugging it into a virtual mechanical model of the fly, #MuJoCo from the #AnyBrain #HHMIJanelia project team.

#neuroscience #Drosophila #connectomics

@tuthill

If interested in this topic, Prof. Bing Brunton gave a talk at #Cosyne2026 which is very much worth watching:

https://youtu.be/yhUBq5R01qA?t=3430

Among other topics, Bing presents the minimal network for the oscillatory behaviour that sustains walking, and also the embodiment of a connectome by plugging it into a virtual mechanical model of the fly, #MuJoCo from the #AnyBrain #HHMIJanelia project team.

#neuroscience #Drosophila #connectomics

@tuthill

If interested in this topic, Prof. Bing Brunton gave a talk at #Cosyne2026 which is very much worth watching:

https://youtu.be/yhUBq5R01qA?t=3430

Among other topics, Bing presents the minimal network for the oscillatory behaviour that sustains walking, and also the embodiment of a connectome by plugging it into a virtual mechanical model of the fly, #MuJoCo from the #AnyBrain #HHMIJanelia project team.

#neuroscience #Drosophila #connectomics

#introduction To fill in my profile tags, a thread:

#TrakEM2 open source software mostly for #connectomics, and supports manual and automatically montaging and aligning overlapping 2D image tiles (with #SIFT features and rigid or elastic transformation models), and reconstructing by painting volumes or tracing branched neuronal arbors neurons plus synapses to map a #connectome from #vEM (volume electron microscopy).

See: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0038011

Git repository at: https://github.com/trakem2/

To fill in my profile tags, a thread:

#TrakEM2 is open source software mostly for #connectomics (but found uses well beyond), and provides the means for both manual and automatic montaging and aligning overlapping 2D image tiles (with #SIFT features and rigid or elastic transformation models), and then reconstructing with mostly manual means–by painting with a digital brush–the volumes of structures of interest, as well as trace the branched arbors of e.g., neurons and annotate their synapses, therefore mapping a #connectome from #vEM (volume electron microscopy).

#TrakEM2 paper at https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0038011

Git repository at https://github.com/trakem2/

For 3D visualization, #TrakEM2 uses the 3D Viewer https://imagej.net/plugins/3d-viewer/

As software, #TrakEM2 runs as a plugin of #FijiSc https://fiji.sc/ and in fact motivated the creation of the #FijiSc software in the first place, to manage its many dependencies and therefore facilitate distribution to the broader #neuroscience community.

#TrakEM2 was founded in 2005, when terabyte-sized datasets were rare and considered large. The largest dataset that I've successfully managed with #TrakEM2 was about 16 TB. For larger datasets, see #CATMAID below.

Sunday slow rereading on #neuroscience #drosophila #flybrain #electromicroscopy #connectomics #omics

Holy Molly forgot this top notch quotation!?

,There is a before and after connectome—B.C. and A.C.’

@albertcardona referencing a well-known quote from #columbiaun #TheoreticalNeuroscience Larry Abbott

with this follow-up:

,It’s the end of the beginning’

https://www.science.org/content/article/complete-map-fruit-fly-brain-circuitry-unveiled

The new Center for Structural and Functional #Connectomics (CSFC) will be established on our #Garching #campus with funding of around €69 million. 👏 Focus lies on the comprehensive mapping & analysis of all #neuronal connections in the brain: http://go.tum.de/373567

📷A.Eckert

Arrived at the Volume Electron Microscopy
Gordon Research Conference

https://www.grc.org/volume-electron-microscopy-conference/2025/

near Barcelona. I will speak about Volume EM and #connectomics in marine zoomplankton.

#vEM #microscopy #connectomics

"Comparative connectomics of Drosophila descending and ascending neurons", Tomke Stürner et al. 2025 (Greg Jefferis and Katharina Eichler's labs).
https://www.nature.com/articles/s41586-025-08925-z

Compares between males and females.

#neuroscience #Drosophila #connectomics #vEM #volumeEM

GridTape TEM with beam deflection to reduce stage movements and increase imaging throughput:

"Fast imaging of millimeter-scale areas with beam deflection transmission electron microscopy", Zhao et al. 2024

https://www.nature.com/articles/s41467-024-50846-4

#TEM #GridTapeTEM #vEM #VolumeEM #connectomics #neuroscience #microscopy #ElectronMicroscopy

From Moritz Helmstaedter on #RoboEM:

"In today’s AI research, any project lasting longer than 6 months is considered slow, if not outdated and overrun by history. RoboEM, with a concept and an approach that seem quite plausible, still took 5 years from idea to the fully evaluated tool reported here. This was only possible with the patient support of the Max Planck Society, which encourages long-term projects, and the tenacity of the first author. Details made all the difference. And, as often, dead ends had to be avoided efficiently. We had to abandon, for example, the idea of using steering variability to indicate branch points — a nice analogy to road intersections in car steering, but too far-fetched to work well enough in brain tissue data. Sometimes giving up beloved ideas is as important as following through on others. M.H."

https://www.nature.com/articles/s41592-024-02227-4.epdf?sharing_token=nElv1SiMTpxjPsXqxX9xMtRgN0jAjWel9jnR3ZoTv0Nrov_SWdBALYS97F1eM5Lk_JEBGPmcigRE4GeE5PJKr0YlUmXLIqorYFzRm9BanPX-UNoWn8B-lFTNgSYQl_gdPFu85a_vT5pFp1FCyd6dRPVpDqcS14IBc1pS4_ue4ho%3D

#connectomics #volumeEM #vEM #neuroscience #MaxPlanckSociety

Postdoc position at the lab of Michael Winding at #TheCrick in London:

https://crick.wd3.myworkdayjobs.com/External/job/London/Postdoctoral-Fellow---M-Winding-Social-Circuits-and-Connectomics-Laboratory_R1447-1

... on neuronal circuits that drive social interactions between animals.

#neuroscience #connectomics #Drosophila #vEM #FIBSEM

"SmartEM: machine-learning guided electron microscopy" by Meirovitch et al 2023 (Nir Shavit and Aravi Samuel labs)
https://www.biorxiv.org/content/10.1101/2023.10.05.561103v1.abstract

Turn up the imaging rate of your scanning electron microscope by only imaging at high resolution the areas of the image necessary to resolve ambiguities in the low-res image. Motivated by the need for high-throughput but inexpensive imaging for #connectomics.

#neuroscience #vEM #ElectronMicroscopy

A connectome of the optic lobe of the extremely tiny fairy wasp, Megaphragma sp.

"A complete reconstruction of the early visual system of an adult insect", by Chua et al. 2023 (Chklovskii & Polilov) https://www.sciencedirect.com/science/article/pii/S096098222301237X

Don't miss the supplemental figures.

"Compared with the honeybee and the fruit fly, Megaphragma exhibits the following miniaturization-related adaptations: a significant reduction in the number of ommatidia, absence of several cell types, reduced size, and denucleation of neurons. Interestingly, the reduction in lens diameter is less than that expected from the optimization of the optical resolution of the eye. This suggests that light sensitivity is a more important
consideration when lens diameter approaches the wavelength of light. The absence of wide-field (or non-columnar) lamina neurons in Megaphragma could be a consequence of the smaller number of ommatidia, their larger acceptance angle, and the lower resolving power of the eye."

Volume assembled with #FijiSc and #TrakEM2, and its neurons and synapses mapped with #CATMAID. Woohoo!

#neuroscience #connectomics #VolumeEM #vEM #insects #miniaturization

Following from Collinson's paper, here is my take on scaling up volume electron microscopy for connectomics in the #UK or any country willing to commit about 10 to 20 million a year:

"Growing and nurturing a research base in connectomics"
https://albert.rierol.net/tell/20230823_connectomics_research_base.html

From the humble #Drosophila to the #mouse brain, passing through the mosquito, honeybee, gecko lizards and the Etruscan shrew.

It's possible, it's feasible, it's timely: therefore we must.

#neuroscience #connectomics #VolumeEM #vEM

"Wiring and Connectivity Enabling CO2 Sensitization in the Aedes aegypti Mosquito", the PhD thesis of Karen Jialu Bao in Wei Lee's lab:

https://www.proquest.com/openview/de064dd4ef5e6a9cfc108de79cad2507/1?cbl=18750&diss=y&pq-origsite=gscholar&parentSessionId=fQ5tpeS4V1uQk79Qi6E3Op1N6jibvuXyMHpeMwzUoro%3D

#neuroscience #connectomics #mosquito #Aedes

@brembs

For the worm there's the additional problem that the field has been working with point neurons for decades, ignoring the fact that most neurons in C. elegans have a very clear axon separate from its dendrite. I'd like to see a cleaned up connectome where there are 4 synaptic connectivity matrices and not one (axo-dendritic, axon-axonic, etc.), and I fear I may have to do so myself.

Modeling a connectome while mixing axo-dendritic with axo-axonic synapses with a point-neuron model is only asking for trouble and confusion.

#Celegans #neuroscience #connectomics

@brembs

For the worm there's the additional problem that the field has been working with point neurons for decades, ignoring the fact that most neurons in C. elegans have a very clear axon separate from its dendrite. I'd like to see a cleaned up connectome where there are 4 synaptic connectivity matrices and not one (axo-dendritic, axon-axonic, etc.), and I fear I may have to do so myself.

Modeling a connectome while mixing axo-dendritic with axo-axonic synapses with a point-neuron model is only asking for trouble and confusion.

#Celegans #neuroscience #connectomics

@brembs

For the worm there's the additional problem that the field has been working with point neurons for decades, ignoring the fact that most neurons in C. elegans have a very clear axon separate from its dendrite. I'd like to see a cleaned up connectome where there are 4 synaptic connectivity matrices and not one (axo-dendritic, axon-axonic, etc.), and I fear I may have to do so myself.

Modeling a connectome while mixing axo-dendritic with axo-axonic synapses with a point-neuron model is only asking for trouble and confusion.

#Celegans #neuroscience #connectomics

@brembs

For the worm there's the additional problem that the field has been working with point neurons for decades, ignoring the fact that most neurons in C. elegans have a very clear axon separate from its dendrite. I'd like to see a cleaned up connectome where there are 4 synaptic connectivity matrices and not one (axo-dendritic, axon-axonic, etc.), and I fear I may have to do so myself.

Modeling a connectome while mixing axo-dendritic with axo-axonic synapses with a point-neuron model is only asking for trouble and confusion.

#Celegans #neuroscience #connectomics

@brembs

For the worm there's the additional problem that the field has been working with point neurons for decades, ignoring the fact that most neurons in C. elegans have a very clear axon separate from its dendrite. I'd like to see a cleaned up connectome where there are 4 synaptic connectivity matrices and not one (axo-dendritic, axon-axonic, etc.), and I fear I may have to do so myself.

Modeling a connectome while mixing axo-dendritic with axo-axonic synapses with a point-neuron model is only asking for trouble and confusion.

#Celegans #neuroscience #connectomics

Testing hashtag #MAGA "fields" (AND/0R, #Bayesian, Hidden Markov Modeling #HMM) #covid #microbial #biochemical #metabalomic #connectomics fuel cell https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0138448

Postdoc position: Career Returner Fellowship

"The LMB is proud to launch a three-year fully funded fellowship for scientists who have had a career break of 12 months or more."

"At the LMB, we understand that stepping away from research – even briefly – can affect career progression. That is why we have created a dedicated postdoctoral fellowship to support researchers who have taken a career break of 12 months or more, for any reason, for example parental leave, health reasons, caregiving, a career change or other personal circumstances."

https://mrclmb.ac.uk/careers-and-people/postdocs/career-returner-fellowship/

Happy to discuss applications to our lab in #Drosophila #connectomics, #ElectronMicroscopy or #ComputerVision applied to #BioimageInformatics.

#MRCLMB #PhDJobs #neuroscience

Postdoc position: Career Returner Fellowship

"The LMB is proud to launch a three-year fully funded fellowship for scientists who have had a career break of 12 months or more."

"At the LMB, we understand that stepping away from research – even briefly – can affect career progression. That is why we have created a dedicated postdoctoral fellowship to support researchers who have taken a career break of 12 months or more, for any reason, for example parental leave, health reasons, caregiving, a career change or other personal circumstances."

https://mrclmb.ac.uk/careers-and-people/postdocs/career-returner-fellowship/

Happy to discuss applications to our lab in #Drosophila #connectomics, #ElectronMicroscopy or #ComputerVision applied to #BioimageInformatics.

#MRCLMB #PhDJobs #neuroscience

Postdoc position: Career Returner Fellowship

"The LMB is proud to launch a three-year fully funded fellowship for scientists who have had a career break of 12 months or more."

"At the LMB, we understand that stepping away from research – even briefly – can affect career progression. That is why we have created a dedicated postdoctoral fellowship to support researchers who have taken a career break of 12 months or more, for any reason, for example parental leave, health reasons, caregiving, a career change or other personal circumstances."

https://mrclmb.ac.uk/careers-and-people/postdocs/career-returner-fellowship/

Happy to discuss applications to our lab in #Drosophila #connectomics, #ElectronMicroscopy or #ComputerVision applied to #BioimageInformatics.

#MRCLMB #PhDJobs #neuroscience

Postdoc position: Career Returner Fellowship

"The LMB is proud to launch a three-year fully funded fellowship for scientists who have had a career break of 12 months or more."

"At the LMB, we understand that stepping away from research – even briefly – can affect career progression. That is why we have created a dedicated postdoctoral fellowship to support researchers who have taken a career break of 12 months or more, for any reason, for example parental leave, health reasons, caregiving, a career change or other personal circumstances."

https://mrclmb.ac.uk/careers-and-people/postdocs/career-returner-fellowship/

Happy to discuss applications to our lab in #Drosophila #connectomics, #ElectronMicroscopy or #ComputerVision applied to #BioimageInformatics.

#MRCLMB #PhDJobs #neuroscience