Symvoulidis Panos
@symvou.bsky.social
Engineering systems and experimental workflows to
back-engineer brain structure and function at the
@eboyden3
lab (MIT)
🐟🧠-🔬🧪-🤖&⚕️
back-engineer brain structure and function at the
@eboyden3
lab (MIT)
🐟🧠-🔬🧪-🤖&⚕️
Reposted by Symvoulidis Panos
#PhysicsFactlet
A Shack-Hartmann sensor is a simple and widely used device to measure the phase profile of a wavefront (aka "where the light is coming from").
A mini 🧵
1/
#Optics #Physics
A Shack-Hartmann sensor is a simple and widely used device to measure the phase profile of a wavefront (aka "where the light is coming from").
A mini 🧵
1/
#Optics #Physics
May 27, 2025 at 9:28 AM
#PhysicsFactlet
A Shack-Hartmann sensor is a simple and widely used device to measure the phase profile of a wavefront (aka "where the light is coming from").
A mini 🧵
1/
#Optics #Physics
A Shack-Hartmann sensor is a simple and widely used device to measure the phase profile of a wavefront (aka "where the light is coming from").
A mini 🧵
1/
#Optics #Physics
Reposted by Symvoulidis Panos
New blog at "Engineering {X}," where X = serendipity, understanding, or existence! @clairebookworm.bsky.social, Nina Khera, and I are co-editors. Our first post, "The Dropout Curriculum," asks: what should you learn, to disrupt fields from the outside? engineeringx.substack.com/p/the-dropou...
The Dropout Curriculum
How do you plan what to learn, to solve the problems you care about?
engineeringx.substack.com
May 16, 2025 at 9:49 AM
New blog at "Engineering {X}," where X = serendipity, understanding, or existence! @clairebookworm.bsky.social, Nina Khera, and I are co-editors. Our first post, "The Dropout Curriculum," asks: what should you learn, to disrupt fields from the outside? engineeringx.substack.com/p/the-dropou...
Reposted by Symvoulidis Panos
Light-microscopy-based connectomic reconstruction of mammalian brain tissue rdcu.be/ek8GG Wow! 😍
Light-microscopy-based connectomic reconstruction of mammalian brain tissue
Nature - A technique called LICONN (light-microscopy-based connectomics) allows mapping of brain tissue at synapse level and simultaneous measurement of molecular information, thus enabling...
rdcu.be
May 8, 2025 at 8:02 AM
Light-microscopy-based connectomic reconstruction of mammalian brain tissue rdcu.be/ek8GG Wow! 😍
Reposted by Symvoulidis Panos
How can organs regenerate fast? Bioelectricity helps -- by coupling sub-second electrical injury signals to regenerative proliferation.
First preprint from my potsdoc :D with @liujinghui.bsky.social @ritamateus.bsky.social @mpi-cbg.de and collaborators @mpipks.bsky.social @csbdresden.bsky.social
First preprint from my potsdoc :D with @liujinghui.bsky.social @ritamateus.bsky.social @mpi-cbg.de and collaborators @mpipks.bsky.social @csbdresden.bsky.social
April 9, 2025 at 2:12 PM
How can organs regenerate fast? Bioelectricity helps -- by coupling sub-second electrical injury signals to regenerative proliferation.
First preprint from my potsdoc :D with @liujinghui.bsky.social @ritamateus.bsky.social @mpi-cbg.de and collaborators @mpipks.bsky.social @csbdresden.bsky.social
First preprint from my potsdoc :D with @liujinghui.bsky.social @ritamateus.bsky.social @mpi-cbg.de and collaborators @mpipks.bsky.social @csbdresden.bsky.social
Reposted by Symvoulidis Panos
We have a new review out! In this Microscopy & Microanalysis piece, Louisa Mezache and I survey some of the latest commercially available microscope technologies: Nikon NSPARC, Re-scan Gaia, CSR Biotech MI-SIM, refinements to STED, SMLM from Bruker and Abbelight… Check it out with free access:
Advancing Super-Resolution Microscopy: Recent Innovations in Commercial Instruments
Abstract. Super-resolution microscopy techniques have accelerated scientific progress, enabling researchers to explore cellular structures and dynamics wit
academic.oup.com
April 9, 2025 at 3:47 PM
We have a new review out! In this Microscopy & Microanalysis piece, Louisa Mezache and I survey some of the latest commercially available microscope technologies: Nikon NSPARC, Re-scan Gaia, CSR Biotech MI-SIM, refinements to STED, SMLM from Bruker and Abbelight… Check it out with free access:
Reposted by Symvoulidis Panos
It feels a bit strange having such a watery liquid behave optically like glass...
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
March 12, 2025 at 3:19 PM
It feels a bit strange having such a watery liquid behave optically like glass...
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Symvoulidis Panos
Published in final form, Feb 12, 2025: Shin et al., "Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues." Journal link: www.nature.com/articles/s41... PDF link: synthneuro.org/publications... News story: mcgovern.mit.edu/2025/02/18/s...
March 3, 2025 at 3:29 PM
Published in final form, Feb 12, 2025: Shin et al., "Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues." Journal link: www.nature.com/articles/s41... PDF link: synthneuro.org/publications... News story: mcgovern.mit.edu/2025/02/18/s...
Reposted by Symvoulidis Panos
⚡️ Excited to introduce ZAPBench, our #ICLR2025 spotlight: The Zebrafish Activity Prediction Benchmark measures progress in predicting neural activity within an entire vertebrate brain (70k+ neurons!)
Explore interactive visualizations, datasets, code + paper: google-research.github.io/zapbench
🧠🧪
Explore interactive visualizations, datasets, code + paper: google-research.github.io/zapbench
🧠🧪
ZAPBench
ZAPBench evaluates how well different models can predict the activity of over 70,000 neurons in a novel larval zebrafish dataset.
google-research.github.io
March 4, 2025 at 3:22 PM
⚡️ Excited to introduce ZAPBench, our #ICLR2025 spotlight: The Zebrafish Activity Prediction Benchmark measures progress in predicting neural activity within an entire vertebrate brain (70k+ neurons!)
Explore interactive visualizations, datasets, code + paper: google-research.github.io/zapbench
🧠🧪
Explore interactive visualizations, datasets, code + paper: google-research.github.io/zapbench
🧠🧪
Reposted by Symvoulidis Panos
February 21, 2025 at 6:17 AM
Reposted by Symvoulidis Panos
Clinical applications of human organoids - a new review article in Nature Medicine
🧪 #MedSky
@natureportfolio.nature.com
www.nature.com/articles/s41...
🧪 #MedSky
@natureportfolio.nature.com
www.nature.com/articles/s41...
Clinical applications of human organoids - Nature Medicine
Organoid research is moving beyond developmental and disease biology, driving insights into current and emerging health threats and enabling personalized and regenerative medicine applications.
www.nature.com
February 11, 2025 at 11:39 AM
Clinical applications of human organoids - a new review article in Nature Medicine
🧪 #MedSky
@natureportfolio.nature.com
www.nature.com/articles/s41...
🧪 #MedSky
@natureportfolio.nature.com
www.nature.com/articles/s41...
Reposted by Symvoulidis Panos
Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues
Ultrastructural membrane expansion microscopy enables imaging of membranes and proteins in brain slices at a resolution of ~60 nm on a confocal microscope
www.nature.com/articles/s41...
Ultrastructural membrane expansion microscopy enables imaging of membranes and proteins in brain slices at a resolution of ~60 nm on a confocal microscope
www.nature.com/articles/s41...
Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues - Nature Communications
Lipid membranes are hard to visualise in tissues with nanoscale precision. The authors report ultrastructural membrane expansion microscopy (umExM), a tool that enables dense membrane labelling for na...
www.nature.com
February 16, 2025 at 6:19 PM
Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues
Ultrastructural membrane expansion microscopy enables imaging of membranes and proteins in brain slices at a resolution of ~60 nm on a confocal microscope
www.nature.com/articles/s41...
Ultrastructural membrane expansion microscopy enables imaging of membranes and proteins in brain slices at a resolution of ~60 nm on a confocal microscope
www.nature.com/articles/s41...
Reposted by Symvoulidis Panos
So much happening in the segmentation space for bioimage analysis. These two papers that were published online today really stood out to me as noteworthy (a thread).
February 12, 2025 at 2:39 PM
So much happening in the segmentation space for bioimage analysis. These two papers that were published online today really stood out to me as noteworthy (a thread).
Reposted by Symvoulidis Panos
The self-driving multiscale microscope from @daetwylerstephan.bsky.social is out.
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
Imaging of cellular dynamics from a whole organism to subcellular scale with self-driving, multiscale microscopy
Nature Methods - A self-driving multiresolution light-sheet microscope enables the simultaneous observation and quantification of cellular and subcellular dynamics in the context of intact and...
www.nature.com
February 12, 2025 at 1:45 PM
The self-driving multiscale microscope from @daetwylerstephan.bsky.social is out.
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
Reposted by Symvoulidis Panos
Reposted by Symvoulidis Panos
My favorite quote from Nature's 10 year retrospective on expansion microscopy (ExM): “It’s so easy, even my nine-year-old can do it,” [CMU professor, SynthNeuro group alum, and ExM innovator, Yongxin] Zhao says. Happy 10th birthday, expansion microscopy!
A decade in, expansion microscopy is unlocking insights across biology and medicine
https://go.nature.com/4adlNgg
https://go.nature.com/4adlNgg
‘Expansion microscopy’ turns ten: how a tissue-swelling method brought super-resolution imaging to the masses
A decade in, expansion microscopy is unlocking insights across biology and medicine.
go.nature.com
January 13, 2025 at 11:18 PM
My favorite quote from Nature's 10 year retrospective on expansion microscopy (ExM): “It’s so easy, even my nine-year-old can do it,” [CMU professor, SynthNeuro group alum, and ExM innovator, Yongxin] Zhao says. Happy 10th birthday, expansion microscopy!
Reposted by Symvoulidis Panos
Looking to inject some fishy goodness into your timeline? Check out our exhaustive lists (x3) of Group Leaders and Senior Scientists in the #zebrafish community! 🧪
Version 1: go.bsky.app/2cHYybY
Version 2: go.bsky.app/4zBuxAF
Version 3: go.bsky.app/JvjuSZg
Version 1: go.bsky.app/2cHYybY
Version 2: go.bsky.app/4zBuxAF
Version 3: go.bsky.app/JvjuSZg
January 21, 2025 at 9:13 AM
Looking to inject some fishy goodness into your timeline? Check out our exhaustive lists (x3) of Group Leaders and Senior Scientists in the #zebrafish community! 🧪
Version 1: go.bsky.app/2cHYybY
Version 2: go.bsky.app/4zBuxAF
Version 3: go.bsky.app/JvjuSZg
Version 1: go.bsky.app/2cHYybY
Version 2: go.bsky.app/4zBuxAF
Version 3: go.bsky.app/JvjuSZg
Reposted by Symvoulidis Panos
We hope other labs find it as useful as we do! Given that it's free, we also hope it can be used in teaching labs, which are often low resourced. Congratulations to all authors! #zebrafish 🧠🧪🧬 bmcbioinformatics.biomedcentral.com/articles/10....
Marigold: a machine learning-based web app for zebrafish pose tracking - BMC Bioinformatics
Background High-throughput behavioral analysis is important for drug discovery, toxicological studies, and the modeling of neurological disorders such as autism and epilepsy. Zebrafish embryos and lar...
bmcbioinformatics.biomedcentral.com
January 28, 2025 at 4:23 PM
We hope other labs find it as useful as we do! Given that it's free, we also hope it can be used in teaching labs, which are often low resourced. Congratulations to all authors! #zebrafish 🧠🧪🧬 bmcbioinformatics.biomedcentral.com/articles/10....
Reposted by Symvoulidis Panos
Köcher et al. report that concussion severity impacts zebrafish larvae escape behavior through opposing effects: habituation deficits at lower forces and fatigue at higher forces. Insights could advance concussion research. Read at: https://buff.ly/40jXYPo
January 29, 2025 at 9:00 AM
Köcher et al. report that concussion severity impacts zebrafish larvae escape behavior through opposing effects: habituation deficits at lower forces and fatigue at higher forces. Insights could advance concussion research. Read at: https://buff.ly/40jXYPo
Reposted by Symvoulidis Panos
A Sensitive Soma-localized Red Fluorescent Calcium Indicator for Multi-Modality Imaging of Neuronal Populations In Vivo. It works well with wide-field imaging, two-photon microscopy, and fiber photometry biorxiv.org/content/10.1...
February 4, 2025 at 3:49 AM
A Sensitive Soma-localized Red Fluorescent Calcium Indicator for Multi-Modality Imaging of Neuronal Populations In Vivo. It works well with wide-field imaging, two-photon microscopy, and fiber photometry biorxiv.org/content/10.1...
Reposted by Symvoulidis Panos
@e11bio.bsky.social needs help to scale optical connectomics to humans and other mammals! Huge opportunity to have an impact on brain science as part of a world-class, mission-driven team. #hiring computational scientists at all levels to build data pipelines for brain microscopy images! 🧪
🚀 We are looking for Image Data Scientists to join our mission to advance connectomics towards whole brain scale for humans and other mammals (1/3) 🚀
February 5, 2025 at 9:37 PM
@e11bio.bsky.social needs help to scale optical connectomics to humans and other mammals! Huge opportunity to have an impact on brain science as part of a world-class, mission-driven team. #hiring computational scientists at all levels to build data pipelines for brain microscopy images! 🧪
Reposted by Symvoulidis Panos
"Imagine a DAPI-like stain, but for the extracellular matrix." That's basically how this work was pitched to me by Kayvon and Antonio a year or so ago. Now the final product really delivers. Read about their versatile label for ECM in living tissues here: www.nature.com/articles/s41...
February 6, 2025 at 4:02 PM
"Imagine a DAPI-like stain, but for the extracellular matrix." That's basically how this work was pitched to me by Kayvon and Antonio a year or so ago. Now the final product really delivers. Read about their versatile label for ECM in living tissues here: www.nature.com/articles/s41...
Reposted by Symvoulidis Panos
Days-old zebrafish rapidly learn to recognize threatening agents through noradrenergic and forebrain circuits
Zebrafish larvae can learn to perceive a stationary object as a threat, via noradrenergic and forebrain circuits, after being chased by the object for ∼1 min
www.cell.com/current-biol...
Zebrafish larvae can learn to perceive a stationary object as a threat, via noradrenergic and forebrain circuits, after being chased by the object for ∼1 min
www.cell.com/current-biol...
Days-old zebrafish rapidly learn to recognize threatening agents through noradrenergic and forebrain circuits
Zocchi et al. utilize a robotic predator-learning assay to show that larval zebrafish as young as 5 days post-fertilization rapidly learn to avoid robots following predatory-like experiences. Whole-brain imaging of neural activity implicates the noradrenergic system and forebrain populations in this “conditioned robot avoidance” learning.
www.cell.com
December 29, 2024 at 6:56 PM
Days-old zebrafish rapidly learn to recognize threatening agents through noradrenergic and forebrain circuits
Zebrafish larvae can learn to perceive a stationary object as a threat, via noradrenergic and forebrain circuits, after being chased by the object for ∼1 min
www.cell.com/current-biol...
Zebrafish larvae can learn to perceive a stationary object as a threat, via noradrenergic and forebrain circuits, after being chased by the object for ∼1 min
www.cell.com/current-biol...
Reposted by Symvoulidis Panos
An integrative data-driven model simulating C. elegans brain, body and environment interactions
www.nature.com/articles/s43...
www.nature.com/articles/s43...
An integrative data-driven model simulating C. elegans brain, body and environment interactions - Nature Computational Science
BAAIWorm is an integrative data-driven model of C. elegans that simulates interactions between the brain, body and environment. The biophysically detailed neuronal model is capable of replicating the ...
www.nature.com
December 19, 2024 at 4:16 PM
An integrative data-driven model simulating C. elegans brain, body and environment interactions
www.nature.com/articles/s43...
www.nature.com/articles/s43...
Reposted by Symvoulidis Panos
🍾Our small #UExM adventure is only starting! #ProtistsOnSky
We are happy to announce that the Moore Foundation will be funding our efforts in creating an Expansion Microscopy atlas of #Microbial #Eukaryotes with @gautamdey.bsky.social @UNIGE
@embl.org
LINK: www.unige.ch/sciences/chi...
1/4
We are happy to announce that the Moore Foundation will be funding our efforts in creating an Expansion Microscopy atlas of #Microbial #Eukaryotes with @gautamdey.bsky.social @UNIGE
@embl.org
LINK: www.unige.ch/sciences/chi...
1/4
December 18, 2024 at 9:46 AM
🍾Our small #UExM adventure is only starting! #ProtistsOnSky
We are happy to announce that the Moore Foundation will be funding our efforts in creating an Expansion Microscopy atlas of #Microbial #Eukaryotes with @gautamdey.bsky.social @UNIGE
@embl.org
LINK: www.unige.ch/sciences/chi...
1/4
We are happy to announce that the Moore Foundation will be funding our efforts in creating an Expansion Microscopy atlas of #Microbial #Eukaryotes with @gautamdey.bsky.social @UNIGE
@embl.org
LINK: www.unige.ch/sciences/chi...
1/4
Reposted by Symvoulidis Panos
In our recent preprint, we address this question - combining smart microscopy with optogenetics to present a platform for 'outcome-driven' microscopy, precisely controlling cells to bring them to the same outcome, despite all the variation. www.biorxiv.org/content/10.1...
December 17, 2024 at 5:47 PM
In our recent preprint, we address this question - combining smart microscopy with optogenetics to present a platform for 'outcome-driven' microscopy, precisely controlling cells to bring them to the same outcome, despite all the variation. www.biorxiv.org/content/10.1...