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Martin Černý

@bacillus.bsky.social
309 followers 243 following 131 posts

PhD in protein structural biochemistry | rock climbing | DnD 5e enthusiast | boardgame nerd | coffee advocate

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Reposted by Martin Černý
Natalia Cecire @ncecire.bsky.social · 01/10/2026
The fragility of senior managers as they literally destroy whole careers and fields of study has really been something to behold. Is it hot in that kitchen?
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MwahahahahahadScientist @mads100tist.bsky.social · 30/09/2026
When your proposal gets killed by an algorithm that has no capacity to understand science, what will you do? When your colleague's proposal gets killed by an algorithm that has no capacity to understand science and amplifies biases by default, what will you do? That's where we're at 🧪
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Iris van Rooij 💭 @irisvanrooij.bsky.social · 29/09/2026
Dear @erc.europa.eu , we DO already have common standards & frameworks. 'AI' likes to pose itself as 'special' but we do not need to reinvent the wheel. We already have established codes of conduct for research integrity. We just need to apply them. See below + more resources in thread🧵
Protecting the Ecosystem of Human Knowledge: Five Principles
We must protect and cultivate the ecosystem of human knowledge. AI models can mimic
the appearance of scholarly work, but they are (by construction) unconcerned with truth
— the result is a torrential outpouring of unchecked but convincing-sounding “informa-
tion”. At best, such output is accidentally true, but generally citationless, divorced from
human reasoning and the web of scholarship that it steals from. At worst, it is confidently
wrong. Both outcomes are dangerous to the ecosystem.
Olivia Guest, Iris van Rooij, Marcela Suarez, et al. (2025, n.p.)
Knowledge production is supposed to be safeguarded by (inter)national codes of conduct for research
integrity (ALLEA 2023; KNAW et al. 2018). Such codes forbid, for instance, fabrication of data,
falsification of results, plagiarism, and, generally, distortion of the scientific record. Many argue that
new rules are required to regulate academic AI use, but pre-existing guidelines fit the bill (cf. Tafani
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MAKS 26 👀🇺🇦 @maks23.bsky.social · 25/09/2026
🤬 After strike in Kyiv, bodies lie in the middle of the street...
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Julia Frunzke @frunzkelab.bsky.social · 22/09/2026
Finally!! 🥳 "A consensus-based guideline for personalized bacteriophage therapy" www.nature.com/articles/s41... www.spektrum.de/news/leitlin... @spp2330.bsky.social
spektrum.de
Infektionen: Leitlinie zur Phagentherapie
Für wen eignet sich eine Phagentherapie?
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Magnetic Resonance News @nmr900.bsky.social · 14/08/2026
@nmr900.bsky.social is also celebrating 21 years of operation this August 2026, having first opened to users in August 2005! Here’s to another 21 years at 21 Tesla! 🧲🍾
nmr900 Facility (Ottawa, Ontario), August 2005
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The Thormann Lab @thethormannden.bsky.social · 09/06/2026
As always, we end our Bachelor's practical class with an agar art contest using the bright colis from @atinygreencell.bsky.social. As always, lots of beautiful images were created. Meet the winner, the Coli Cougar, our next year's class lab book cover.
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Dr Surekha Davies, Historical Monster Consultant (she/her) @drsurekhadavies.bsky.social · 25/05/2026
There was no need to run this study. genAI (and surveillance AI, among other things) is part of an authoritarian and technofascist project. That's why we shouldn't use genAI. And that's why the companies want people addicted to it. Reframe! bsky.app/profile/anth...
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Helen Branswell 🇨🇦 @helenbranswell.bsky.social · 08/05/2026
I find this unsettling: A new study in #Lancet shows that the number of faux citations in scientific articles is on the rise, and #AI is likely to blame. @aniloza.bsky.social reports. www.statnews.com/2026/05/07/l...
statnews.com
Fraudulent citations, blamed on AI hallucinations, are becoming more common in research papers
“Fabricated” citations that do not reference real academic papers are spreading in the literature, polluting the public record of science, a new study found
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Dimitry Tegunov @dtegunov.bsky.social · 03/05/2026
We're super excited to share MissAlignment: a new ML-based approach to reference-free tilt series alignment, spearheaded by @martenchaillet.bsky.social. We think it's going to make your cryo-ET life a lot better. Preprint: www.biorxiv.org/content/10.6... Code: github.com/warpem/miss-... 🧶 Thread:
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Peter W🤓 @wang.social · 01/05/2026
IBM computer manual from 1979:
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Sleestak @sleestak.bsky.social · 16/04/2026
Cool! Now do the other 20,000 agents. www.cnbc.com/2026/04/16/i...
cnbc.com
ICE agent charged with assault by Minnesota prosecutors, arrest warrant issued
Minnesota state prosecutors continue to investigation the killings of Renee Good and Alex Pretti by federal agents in Minneapolis.
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RCSB Protein Data Bank @rcsbpdb.bsky.social · 16/04/2026
April 30: Join us for an introduction to a pedagogical foundation for coding - Understand how coding can contribute to student learning - Recognize and write basic Python scripts - Open and modify existing Colab notebooks to use in their courses.
pdb101.rcsb.org
PDB101: Register for the April 30 CodeBMB Webinar for Beginners
PDB-101: Training, Outreach, and Education portal of RCSB PDB
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Alexey Amunts @amunts.bsky.social · 07/04/2026
65 years after Peter Mitchell’s chemiosmotic theory, we report an association between ATP synthase and the electron transport chain. In the preprint led by @longzhou88.bsky.social, we describe a large supercomplex and show how the supramolecular organization contribute to oxidative phosphorylation 🧵
langtaosha.org.cn
A Supercomplex Incorporating Both Electron Transport Chain and ATP Synthase
The mitochondrial oxidative phosphorylation system powering most aerobic organisms is typically depicted as two spatially segregated machineries(1): electron transport chain complexes I-IV (ETC CI-CIV
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Karolin Luger @nucleosomepolice.bsky.social · 15/04/2026
Finally published at long last (at least in the pre-view version). Explore the wild and woolly world of archaeal histones! Interactive archaeal histone graph incluced rdcu.be/fdFjv. Congratulations to first author Shawn Laursen
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Tomas Pascoa @tomaspascoa.bsky.social · 14/04/2026
1/ Excited to share our preprint! 🥳 Degradation of aromatic compounds, including BTEX pollutants, requires highly endergonic aromatic ring reduction. Using #cryoEM and in situ #cryoET, we show how BCRII couples electron bifurcation modules in one giant redox machine www.biorxiv.org/content/10.6...
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MwahahahahahadScientist @mads100tist.bsky.social · 10/04/2026
"having an LLM generate code more quickly does not increase the speed or capacity of all those other thing"
"AI’s direct impact on this problem is minimal. Okay, so Claude can code it in 3 minutes instead of 30? That’s super, Claude, great work.

Now you either get to spend 27 minutes reviewing the code yourself in a back-and-forth loop with the AI (this is actually kinda fun); or you save 27 minutes and submit unverified code to the code reviewer, who will still take 5 hours like before, but who will now be mad that you’re making them read the slop that you were too lazy to read yourself. Little of value was gained."
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Olivia Guest · Ολίβια Γκεστ @olivia.science · 08/04/2026
*t̶a̶p̶s̶ eats sign* @anthonymoser.com anthonymoser.github.io/writing/rhet...
media.tenor.com
a pink cartoon character is sitting at a table eating grapes ..
Alt: kirby devouring all the foods
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Olivia Guest · Ολίβια Γκεστ @olivia.science · 07/04/2026
> While people often misconstrue generative AI refusal as an ignorant, avoidant, fear-driven position, generative AI refusal builds on accurate research about the various ethical harms associated with generative AI, as well as disciplinary principles in writing studies. refusal.blog/2026/04/07/w...
refusal.blog
Why Abstinence-Only Sex Education is a Bad Metaphor for Generative AI Refusal
Maggie Fernandes, University of Arkansas Image by Yasmin Dwiputri & Data Hazards Projecto on Better Images of AI If I’m being honest, nothing in the conversation about generative AI and ed…
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Karen James @kejames.bsky.social · 29/03/2026
There are so many no-good, terribly bad, wrong, AI-generated anatomical diagrams out there. Here's one I found on the website of an actual clinic in Minnesota. Yikes. Be careful out there.
Diagram of shoulder anatomy, but both the anatomy and the labels are wrong and very obviously AI-generated.
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Karen James @kejames.bsky.social · 30/03/2026
Now annotated! bsky.app/profile/dood...
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Joshua Weitz @joshuasweitz.bsky.social · 27/03/2026
A 20% budget cut atop multiyear funding-induced cuts to research and direct terminations of projects underway will further degrade American leadership in science. This is early news & not even a proposal or appropriations - precisely the reason to speak out now. rollcall.com/2026/03/27/s...
rollcall.com
Sources: White House to propose 20 percent cut to NIH funding
The White House is expected to ask Congress to cut National Institutes of Health spending by 20 percent in the president’s fiscal 2027 budget request, according to multiple sources with knowledge of t...
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MAKS 26 👀🇺🇦 @maks23.bsky.social · 27/03/2026
👀❗️
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Brian Cook @bcryo.bsky.social · 23/03/2026
1) The Herzik lab is excited to announce our newest preprint in collaboration with the Grotjahn lab! We have developed a surfactant cocktail that seeks to overcome one of the more nefarious problems in #cryoEM, Air-water interface (AWI)-induced damage and preferred orientation (PO).
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Dr. Katja Thieme (she/they) @katjathieme.bsky.social · 18/03/2026
I am quite fond of the "I will not read synthetic text" principle. Not that I necessarily follow it. But because we have a right to assert such a choice. And it is good to remind people that because they had a machine write it others can refuse to read it.
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Martin Černý @bacillus.bsky.social · 17/03/2026
What the fuck is Kennedy and Trump doing with the COVID-19? Their press conferences now look like tabloid releases. What are scientists in the US doing? I feel so sad for you. 🧪
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The Ukrainian Review @theukrainianreview.bsky.social · 21/02/2026
Russia actively used the civilian infrastructure of Belarus, in particular cell towers, to lay routes of drones. This allowed them to provide a stable signal and attack targets located on the northern and western borders of Ukraine. They even flew into the territory of NATO countries, no accident.
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The Ukrainian Review @theukrainianreview.bsky.social · 21/02/2026
🇺🇦💻 Ukrainian hackers have been secretly monitoring Russian UAV operators for over six months and have discovered how Russia is using the territory of Belarus, — InformNapalm. They managed to hack accounts of Russian military and gain access to the monitoring systems used by drone operators.
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allepasse.bsky.social @allepasse.bsky.social · 26/01/2026
I’m happy to share the main result of my PhD, which you can find on bioRxiv www.biorxiv.org/content/10.6.... If you are interested in learning about a new way to perform DNA-PAINT multiplexing, which we call Combi-PAINT, or if you are interested in the study of mRNA conformation, keep reading! 1/10
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David Bartel's Lab @bartellab.bsky.social · 23/01/2026
We’re excited to share our latest preprint on the mechanism of excised linear intron stabilization in yeast! This work was led by PhD student @glennli.bsky.social and was a wonderful collaboration with @maxewilkinson.bsky.social. Link: www.biorxiv.org/content/10.6... (1/4)
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Duncan Kountz @dkountz.bsky.social · 09/01/2026
Marburg: soon to be my new home (at least for a few years). Is it any wonder I’m going there? So much great microbiology, past and present
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WIRED @wired.com · 08/01/2026
We've removed the paywall from this guide so everyone can access it. 👇 Stay safe.
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Martin Černý @bacillus.bsky.social · 28/12/2025
I have to say, between writing a thesis and running experiments, I would rather be back in the lab 🥼 #phd
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MAKS 26 👀🇺🇦 @maks23.bsky.social · 26/12/2025
🇺🇦👀
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MAKS 26 👀🇺🇦 @maks23.bsky.social · 24/12/2025
😵‍💫 Putin’s 2001 meeting with Bush and talks about territory!
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Martin Černý @bacillus.bsky.social · 23/12/2025
Who else has a fish on top of the Christmas tree? 🎄
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The Experimentalist @theexperimentalist.bsky.social · 19/12/2025
If you’re a #microbiologist, @elisabethbik.bsky.social needs no introduction. Her relentless work uncovering image manipulation across publications and outspoken advocacy for stronger research scrutiny is popular. Latest by @curlyneuron.bsky.social www.theexperimentalist.org/sci-comm/the...
theexperimentalist.org
The Truth Is Out There, but Can We Believe It? Elisabeth Bik and the Quest for Science Integrity — The Experimentalist
Flavia-Bianca Cristian What does scientific fraud have to do with science communication? Their relationship may be complicated, but addressing the persistent issue of public mistrust in science is c...
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Martin Černý @bacillus.bsky.social · 17/12/2025
I am incredibly pleased to announce our joint first-author publication in the current issue of @narjournal.bsky.social , Expanding CarD interaction network: CrsL is a novel transcription factor in actinobacteria. You can read our findings here: academic.oup.com/nar/article/...
academic.oup.com
Expanding the CarD interaction network: CrsL is a novel transcription regulator in actinobacteria
Abstract. Bacterial transcription regulation is critical for adaptation and survival. CarD is an essential transcription factor in mycobacteria involved in
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Martin Černý @bacillus.bsky.social · 17/12/2025
What are you even supposed to do after PhD? #phd
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MRC Laboratory of Molecular Biology @mrclmb.ac.uk · 16/12/2025
Excellent opportunity for a #postdoc to join Michel Goedert’s group, investigating the mechanisms which cause the formation of amyloid filaments in neurodegenerative diseases, in collaboration with @sjorsscheres.bsky.social’s group. More details: www.nature.com/naturecareer... Closes 04 JAN
Michel Goedert, sat in front of a computer screen which displays filament fold structures
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Stephen Royle @steveroyle.bsky.social · 16/12/2025
Vaults. They are cell biology's greatest puzzle! This preprint from Martin Beck's lab shows them docked on ER membranes with a ribosome inside. What on earth is going on there?? #CellBiology #WTFology www.biorxiv.org/content/10.6...
biorxiv.org
The vault associates with membranes in situ
The eukaryotic vault particle is a giant ribonucleoprotein complex that assembles into an iconic barrel-like cage. Its cellular function has remained elusive despite extensive characterization. Using ...
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Bruker @brukercorporation.bsky.social · 15/12/2025
Ecole Normale Supérieure is expanding its #NMR capabilities with a relaxometry system developed in collaboration with Bruker and coordinated by Dr. Fabien Ferrage. @normalesup.bsky.social @fabferrage.bsky.social Read more: goto.bruker.com/4iOCAe5 #Relaxometry #ENSPSL #ResearchInnovation #Bruker
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Dan Jagger @auditorynerves.bsky.social · 16/12/2025
This deserves a clap. 🧪💊 The first new treatments for gonorrhoea in decades could be a “huge turning point” in efforts to combat the rise of superbug strains of the bacteria. Zoliflodacin emerged from a new, not-for-profit approach for antibiotic development. www.theguardian.com/global-devel...
theguardian.com
New antibiotics hailed as ‘turning point’ in treating drug-resistant gonorrhoea
First new treatments for sexually transmitted disease in decades approved by US Food and Drug Administration as number of cases worldwide surge to 82m
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Martin Černý @bacillus.bsky.social · 13/12/2025
Last Christmas party as part of @ceitec.eu and NCBR at @masarykuniversity.bsky.social. What an amazing blast I had over the time. No its time to finish a thesis and hopefully defend in spring. Any postdoc positions in structural biology? 🫣 have a happy festive times, saturnalias, jules and so on!
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Laurie Adkin, Ph.D. @laurieadkin.bsky.social · 03/12/2025
"This is the final stage of corporatization: public education transformed into a delivery system for private capital." www.currentaffairs.org/news/ai-is-destroying-the-university-and-learning-itself
currentaffairs.org
AI is Destroying the University and Learning Itself
Students use AI to write papers, professors use AI to grade them, degrees become meaningless, and tech companies make fortunes. Welcome to the death of higher education.
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Olivia Guest · Ολίβια Γκεστ @olivia.science · 06/12/2025
It's a difficult needle to thread because a bully (AI industry) has no moral compass nor will stop bullying if we acquiesce. But that doesn't also mean we don't fight back. We try to make this clear from the abstract here too: "AI cannot be allowed to drive change." doi.org/10.5281/zeno... 1/n
Abstract from https://doi.org/10.5281/zenodo.17786243
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Savchenko Volodymyr @savchenkoua.bsky.social · 26/11/2025
🇺🇸👀 If Home Alone 2 were filmed in 2025, Trump would force Kevin to give the criminals the veranda and one of the rooms, make him reduce the number of traps, take all the pizza and Coca-Cola for himself — and assure everyone it was a “mutually beneficial deal.”
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Pedro Beltrao @pedrobeltrao.bsky.social · 21/11/2025
I tried an even harder example on Gemini Pro image generation and this is quite scary/amazing. I asked for a microscopy image of around 20 HeLa cells, GFP tagged 20% nuclear, 10% membrane, +1 nuclear staining, + overlap. Image below and prompt in the following post.
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Fabien Ferrage @fabferrage.bsky.social · 20/11/2025
Cold room deep clean up, in style! Team awesome.
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