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Johannes Bohacek

@bohaceklab.bsky.social
782 followers 318 following 86 posts

Dad. Associate Professor @ ETH Zurich. We study stress, behavior, hippocampus, noradrenaline and the mighty locus coeruleus. We work with mice and focus a lot on 3Rs. Currently active only on LinkedIn.

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Reposted by Johannes Bohacek
Pierre-Luc Germain @plger.bsky.social · 23/06/2026
On biorxiv: doi.org/10.64898/202... Code & data are fully open, and you can browse the predictions live on www.ethz-ins.org/TFBPlatform . Most of this massive work was done by (recently Dr.!) Emanuel Sonder (ETH Zürich & UZH), co-supervised with Mark Robinson (UZH).
doi.org
Large-scale prediction of transcription factor binding across human cell types informs regulatory genomics and reveals promiscuous occupancy associated with chromatin contacts
Our understanding of the mechanisms regulating gene expression has been hampered by our limited knowledge of which transcription factors (TFs) bind where in the genome, which is highly cell type-speci...
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Johannes Bohacek @bohaceklab.bsky.social · 23/06/2026
Interested in mapping transcription factors in your -omic datasets? There's a crazy new resource you don't want to miss!
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Johannes Bohacek @bohaceklab.bsky.social · 05/03/2026
🚨New paper alert🚨 We built a fully standardized, integrated hardware and software solution for real-time welfare monitoring in mice. We used it to look at pain management after brain surgery. Not much has changed from the preprint (see below). Brief: hold back on opioids! doi.org/10.1038/s416...
doi.org
GrimACE: automated, multimodal cage-side assessment of pain and well-being in mice - Lab Animal
The authors present the GrimACE, an automated cage-side system that uses computer vision to score mouse pain and behavior. The tool, which detects postsurgery pain and analgesic effects, enables repea...
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Reposted by Johannes Bohacek
Peter Rupprecht @ptrrupprecht.bsky.social · 19/01/2026
Excited to share our new preprint! We explore the link between the locus coeruleus (LC) and arousal for astrocytes, pyramidal cells, interneurons in the hippocampus. A fantastic collaboration with @sianduss.bsky.social @bohaceklab.bsky.social, and many others: www.biorxiv.org/content/10.6... 1/5
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Johannes Bohacek @bohaceklab.bsky.social · 20/01/2026
Thanks David! All the props go to @ptrrupprecht.bsky.social who led all the cutting-edge and technically savvy analyses together with "my" freshly minted PhD superstar @sianduss.bsky.social
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Johannes Bohacek @bohaceklab.bsky.social · 19/01/2026
🔵 for all the locus coeruleus lovers: check out our latest work! www.biorxiv.org/content/10.6... 🧵👇
biorxiv.org
Locus coeruleus noradrenaline elicits response profiles distinct from natural arousal in hippocampal neurons and astrocytes
During arousal and stress, the locus coeruleus (LC) releases noradrenaline (NA) throughout the brain, including hippocampus. It remains, however, unclear how LC activity contributes to the cellular response profiles observed during natural arousal. Here we directly compared effects of natural arousal and isolated LC activation in mouse CA1 using physiologically titrated optogenetics, combined with fiber photometry of NA and calcium signals, chronic two-photon imaging, and behavioral monitoring. We found that natural arousal robustly activated all three major cell types - astrocytes, pyramidal cells, and inhibitory interneurons - on a population level. In contrast, stimulation of the LC alone exerted a slow inhibitory influence on pyramidal cells and interneurons, with only a subset of interneurons exhibiting a transient activation by LC stimulation. Interneurons, but not pyramidal cells, segregated into functionally consistent LC-responsive subpopulations (activated vs inhibited) with distinct laminar positions in CA1. However, these LC-responsive subpopulations of interneurons did not reliably map onto response subpopulations defined by activity patterns during natural arousal. Astrocytes were strongly activated by both natural arousal and LC stimulation. However, single-cell responses of astrocytes to LC stimulation only partially aligned with their activity during natural arousal responses, indicating distinct driving forces across the two conditions. Together, these results show that LC-driven NA release produces distinct, cell-specific effects that do not align with hippocampal dynamics during natural arousal. Thus, our findings highlight the need to rethink how the locus coeruleus influences the main hippocampal cell types in vivo. ### Competing Interest Statement The authors have declared no competing interest. ETH Zurich, ETH-20 19-1 Swiss National Science Foundation, 310030_172889, 310030_204372, 310030B_170269, PZ00P3_209114 Botnar Research Center for Child Health Swiss 3R Competence Center Roche (Switzerland), https://ror.org/00by1q217 Hochschulmedizin Zürich Flagship project STRESS European Research Council, 670757
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Johannes Bohacek @bohaceklab.bsky.social · 15/01/2026
I just registered for - exciting!!! The "stress meetings" (alternating between North America and Europe) are my favorites in the conference cycle. #stress2026
media.tenor.com
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Johannes Bohacek @bohaceklab.bsky.social · 14/01/2026
Weltschmerz From my collection of powerful (and timely) German words. Literally: World pain. It refers to the suffering and pain one feels because of the state of the world and its inadequacy in relation to one's own desires and expectations.
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Johannes Bohacek @bohaceklab.bsky.social · 14/01/2026
very interesting, thanks for sharing your view on this. I didn't think of LinkedIn that way (you do a thing, you post it), but I get it. I miss the humor there, it seems awfully dry. But maybe that's just the bubble I (accidentally) created by not curating it over the years...
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Johannes Bohacek @bohaceklab.bsky.social · 14/01/2026
American colleagues: who of you uses LinkedIn for posting papers and preprints, to chat about research findings and stir the occasional controversy? In Europe LinkedIn seems to gain popularity amongst researchers, I just find it really sterile and all the posts too polished. Opinions?
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Reposted by Johannes Bohacek
Richard Sever @richardsever.bsky.social · 12/01/2026
Preprints of pandemic potential - new historical piece from me on the history of bioRxiv/medRxiv, their role in the pandemic, and the way forward. 1/n journals.asm.org/doi/10.1128/...
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Johannes Bohacek @bohaceklab.bsky.social · 12/01/2026
Hahaha.... ah... great, thank you!! I will add it to my collection. You made my day 😊
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Johannes Bohacek @bohaceklab.bsky.social · 12/01/2026
Day 7: A classic. (the 3 people following this have now realized that there are long delays between my days...)
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Johannes Bohacek @bohaceklab.bsky.social · 08/01/2026
Day 6 of sharing gems from my personal cartoon collection. Share yours and make my day. I like this one since I did my undergrad in psychology. And I'm Austrian, Sigmund Freud and all that stuff.
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Johannes Bohacek @bohaceklab.bsky.social · 07/01/2026
I can't use twitter/X anymore, it's become an awful and useless place. On this site here, I don't feel like I'm reaching the same colleagues I used to reach on twitter. Someone just told me the action is on LinkedIn now. Really, LinkedIn!? Can I get some opinions on this? Are some of you there?
media.tenor.com
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Reposted by Johannes Bohacek
Yttri Lab @yttrilab.bsky.social · 07/01/2026
Hot off the @nature.com press!! Our A-SOiD behavior library developed specifically for pain to quantify a new chemogenetic gene therapy that targets opioid circuit in ACC without addictive properties @flybottleescape.bsky.social @cmu-neuroscience.bsky.social @cmu.edu www.nature.com/articles/s41...
nature.com
Mimicking opioid analgesia in cortical pain circuits - Nature
The anterior cingulate cortex encodes affective pain behaviours modulated by opioids; targeting opioid-sensitive neurons through a new chemogenetic gene therapy replicates the analgesic effects of mor...
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Johannes Bohacek @bohaceklab.bsky.social · 06/01/2026
It's great that you manipulate Ttr directly and show that overexpression under Camk2a promoter can actually increase spine density 🤯. Any thoughts about the mechanism? It supposedly shuttles T4 from CSF to interstitial fluid. You think its function in neurons is thyroid hormone related?
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Johannes Bohacek @bohaceklab.bsky.social · 06/01/2026
Congratulations Marija! I just read the manuscript, very cool! I'm struck by Ttr. I also always ignored it because I thought it was choroid plexus "only" (and like you say in the paper it was presumed to be a contamination), but we also see it in excitatory neurons in our vHC single-nucleus data.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
As always, we integrate these results with previously published bulk and single-cell data from our lab and make these data freely accessible and searchable through an interactive app (ethz-ins.org/stressome2). This is a very large resource, we hope people like it - please share! 🙏
ethz-ins.org
StressomeExplorer2
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
In contrast, GR motifs open within 15min of stress exposure in all cells independent of the activation state of the cell. Across cells, GRE accessibility vanishes faster after chronic stress. This is showing a clear mechanistic difference between cAMP- and GR-dependent habituation.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Looking at genome accessibility separately in activated and inactivated cells provided mechanistic insight (thanks to reviewers!): CREB/SRF motifs spike only in activated neurons, but this response is blunted after chronic stress. cAMP-related habituation is thus linked to cellular activity.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
By computing stress-induced activity scores for each cell, we find that fewer cells are recruited after CRS, not weaker activation per cell. VIP interneurons and CA1 neurons show the strongest drop in activation. Glial activation also halves after CRS. Great to have a brilliant bioinformatician!
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Single-nucleus multi-omics on >160’000 cells (n=3/group) reveals cell-type-specific stress responses across time. Neurons react fast (VIP interneurons at 15min), glia sustain responses longer. CRS blunts these dynamics across cell types, highlighting widespread habituation.
These terrible dimensionality reduction plots. But they show the beautiful resolution you get with this amount of nuclei, lots of clearly defined cellular populations emerge, both based on the snRNAseq and the snATACseq data.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Chromatin accessibility changes rapidly after acute stress (e.g., GR motifs), but repeated stress does NOT alter these patterns at baseline or after stress. Bulk ATAC-seq cannot explain transcriptional habituation, pointing to other mechanisms.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Similar to transcriptional habituation, behavioral changes (higher anxiety) emerge after 10 days of stress. Surprisingly, corticosterone still peaks normally in both sexes, despite strong transcriptional blunting, showing a disconnect between HPA axis and hippocampal gene expression.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Temporal dynamics reveal different habituation patterns. The habituation of early response genes seems to rely on cAMP-related signaling and their expression is mimicked by forskolin (a cAMP activator). Genes that respond later are linked to glucocorticoid, they are also activated by dexamethosone.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Acute restraint triggers waves of transcription in the ventral hippocampus. After chronic stress, this response is globally blunted: virtually all stress-responsive genes show reduced activation. 10 or 20 days of restraint lead to similar habituation. A lot of info (and 192 brains) in this heatmap 🤯
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Surprisingly, even after 3 weeks of chronic (daily) restraint stress (CRS) there is no change in baseline gene expression! However, the dynamic transcriptomic response to acute stress gets massively blunted. Two distinct mechanisms emerge, here’s the whole story in a nutshell 👇
media.tenor.com
two men with long hair and glasses are standing next to each other with the words " not one but two " on a green background
Alt: This is a stupid GIF to point out that there are two mechanisms. But I want to qualify the statement about "no changes in baseline gene expression". They must be there, somewhere, but they are not visible in bulk - I suspect that they are either restricted to an extremely small percentage of cells, or to a cellular compartment (or both) - for which we lack the resolution and power - even with the snRNAseq data shown later.
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
Acute stress triggers a profound transcriptional response. How does this response change as stress becomes chronic? We address this with multiomic profiling using daily restraint in mice. Led by Rebecca Waag and my bioinformatics partner in crime Pierre-Luc Germain. www.nature.com/articles/s41...
nature.com
Distinct mechanisms of transcriptomic habituation to repeated stress in the mouse hippocampus - Nature Communications
Repeated stress triggers habituation, an important stress coping response. Here, authors chart the dynamic gene expression changes that underlie stress habituation in the mouse brain and reveal two di...
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
How does your favorite gene respond to stress? Check out our updated “Stressome-app”! In a new @natcomms.nature.com paper we vastly extend our interactive app with loads of bulk and single-cell transcriptomics after acute and chronic stress. www.nature.com/articles/s41... I'll walk you through👇
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Reposted by Johannes Bohacek
Marija Kundakovic @kundakoviclab.bsky.social · 04/01/2026
Extremely excited & proud to share our new preprint - we provide for the first time a single cell map of the mouse brain across sex, the estrous cycle, and peripartum! Data are 🔥 👇 "Single-cell map of the female brain across reproductive transitions" www.biorxiv.org/content/10.6...
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Johannes Bohacek @bohaceklab.bsky.social · 05/01/2026
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Johannes Bohacek @bohaceklab.bsky.social · 28/12/2025
Day 5
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Johannes Bohacek @bohaceklab.bsky.social · 26/12/2025
Day 4 of sharing my favorite cartoons. I forget who, but someone showed this at a talk on startle behavior in mice and for some weird reason I have to laugh every time I see it.
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Johannes Bohacek @bohaceklab.bsky.social · 25/12/2025
uff...
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Johannes Bohacek @bohaceklab.bsky.social · 25/12/2025
Day 3 - the best science cartoon. If you have a better one, please share.
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Johannes Bohacek @bohaceklab.bsky.social · 24/12/2025
Day 2 from my cartoon collection. I don't know what it says about me that I find this so funny.
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Johannes Bohacek @bohaceklab.bsky.social · 23/12/2025
😂
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Johannes Bohacek @bohaceklab.bsky.social · 23/12/2025
The world can feel heavy these days, and holidays aren’t easy for everyone. I’ll share one cartoon from my personal collection every day to lighten things up (and to re-activate myself on this medium). Join me, post a cartoon that makes you laugh!
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Johannes Bohacek @bohaceklab.bsky.social · 23/12/2025
@bejalab.bsky.social I watched spinal tap 1+2 back-to-back the last two days. I was laughing so much. Thanks for having this image as your icon 😍
media.tenor.com
a man with long hair and a beard is saying it 's a morale builder isn 't it
ALT: a man with long hair and a beard is saying it 's a morale builder isn 't it
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Johannes Bohacek @bohaceklab.bsky.social · 22/12/2025
After an intense journal-club class, I've decided that this is my favorite neuroscience paper of 2025: www.cell.com/cell/fulltex... Although we have evidence that this mechanism doesn't exist in the hippocampus, it's an incredible tour-de-force. Overall, the habenula field was dominant this year.
cell.com
Neuron-astrocyte coupling in lateral habenula mediates depressive-like behaviors
Stress-induced depression-like behaviors are driven by a dynamic recurrent network involving neurons and astrocytes in the lateral habenula and norepinephrine release from neurons in the locus coerule...
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Johannes Bohacek @bohaceklab.bsky.social · 15/12/2025
I'm teaching a class called "Translational Neuroscience" where I collect such stories. This is very useful information, I didn't know about these drugs, thank you! I'd add Guanfacine with a new mechanism for ADHD: pubmed.ncbi.nlm.nih.gov/33075480/ And all the antibodies for AD too...
thetransmitter.org
How basic neuroscience has paved the path to new drugs
A growing list of medications—such as zuranolone for postpartum depression, suzetrigine for pain, and the gepants class of migraine medicines—exist because of insights from basic research.
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Johannes Bohacek @bohaceklab.bsky.social · 15/12/2025
I'm back from social media DETOX. 5 months... what did I miss?
media.tenor.com
a man wearing a gas mask and a leather jacket is standing in front of a wooden building
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Johannes Bohacek @bohaceklab.bsky.social · 17/09/2025
🔵 I'm interrupting my social media hiatus to flag this important preprint from the Bruchas lab (is he not on Bluesky!?) together with @davidweinshenker.bsky.social. Very difficult experiments to show that dopamine release from LC terminals is independent of VTA 🔥 www.biorxiv.org/content/10.1...
biorxiv.org
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Johannes Bohacek @bohaceklab.bsky.social · 27/06/2025
This preprint has been under review >110 days... I think they can't find reviewers. WOULD YOU BE WILLING TO SERVE AS A REVIEWER? If you're keen, I'd propose your name to the editor... Please re-post
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Johannes Bohacek @bohaceklab.bsky.social · 18/06/2025
I'd have so much to complain about these days. But given the state of affairs in the world, it feels inappropriate to whine about daily hassles. So let me just say this on behalf of everyone who is struggling but otherwise safe: fucking hell.
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Johannes Bohacek @bohaceklab.bsky.social · 05/05/2025
Wait for the ride to Zurich, it's a gorgeous journey through vineyards! Unfortunately, there is no sunshine tomorrow...
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Johannes Bohacek @bohaceklab.bsky.social · 09/04/2025
🔵 Interesting new work from @davidweinshenker.bsky.social on why locus coeruleus neurons might be vulnerable to degeneration in humans (Alzheimer's) but not in mice. And a new approach on how this could be modelled in mice through human tyrosinase overexpression: www.biorxiv.org/content/10.1...
biorxiv.org
Tyrosinase-induced neuromelanin accumulation triggers rapid dysregulation and degeneration of the mouse locus coeruleus
The locus coeruleus (LC), the major source of norepinephrine (NE) in the brain, is among the earliest site of pathology in both Alzheimers disease (AD) and Parkinsons disease (PD), and it undergoes ca...
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Johannes Bohacek @bohaceklab.bsky.social · 17/03/2025
Impression from the evening panel discussion at #ESC2025. Amazing talks today, wonderfully open and fun atmosphere. After all these years, still my favorite meeting in the conference cycle ❤️
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Reposted by Johannes Bohacek
Drew Schreiner @schreinerdrew.bsky.social · 17/03/2025
Dopamine and acetylcholine interactions - so hot right now! Tour de force work from Steph Cragg's group out in NN (lead Yan-Feng Zhang). They find Cholinergic Interneurons (ChIs) largely suppress DA release, distinct from what we just reported in songbirds (1/x) www.nature.com/articles/s41...
media.tenor.com
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