Markku Hakala
@mhakala.bsky.social
Protein, membranes and their interplay. Group Leader at University of Helsinki in 🇫🇮. Former postdoc at UNIGE 🇨🇭in @rouxlab.bsky.social and @kaksonen.bsky.social labs. I like bicycling, hiking, skiing, climbing and sour things.
Reposted by Markku Hakala
Watch out folks, I don’t wanna alarm anyone, but good news is possible!!
This a big deal: "China’s carbon dioxide emissions have been flat or falling for 18 months"
China's economy has grown by ~5% in the last year, so this comprehensively debunks the idea (again) that emissions are tied to growth. So yes, faster progress needed, but this is how you turn the corner.
China's economy has grown by ~5% in the last year, so this comprehensively debunks the idea (again) that emissions are tied to growth. So yes, faster progress needed, but this is how you turn the corner.
China’s CO2 emissions have been flat or falling for past 18 months, analysis finds
World’s biggest polluter on track to hit peak emissions target early but miss goal for cutting carbon intensity
www.theguardian.com
November 12, 2025 at 2:43 PM
Watch out folks, I don’t wanna alarm anyone, but good news is possible!!
Reposted by Markku Hakala
📢Electron Microscopy Unit, Helsinki BioImaging, and ZEISS are organizing a symposium "Frontiers in Imaging: celebrating the EMBI-ZEISS partnership on volumeEM"
🗓️December 2-3, 2025
📍Institute of Biotechnology, University of Helsinki
🔗Program and registration link⤵️
www.helsinki.fi/en/infrastru...
🗓️December 2-3, 2025
📍Institute of Biotechnology, University of Helsinki
🔗Program and registration link⤵️
www.helsinki.fi/en/infrastru...
November 10, 2025 at 10:49 AM
📢Electron Microscopy Unit, Helsinki BioImaging, and ZEISS are organizing a symposium "Frontiers in Imaging: celebrating the EMBI-ZEISS partnership on volumeEM"
🗓️December 2-3, 2025
📍Institute of Biotechnology, University of Helsinki
🔗Program and registration link⤵️
www.helsinki.fi/en/infrastru...
🗓️December 2-3, 2025
📍Institute of Biotechnology, University of Helsinki
🔗Program and registration link⤵️
www.helsinki.fi/en/infrastru...
Reposted by Markku Hakala
Just published! We share an open-source workflow to measure membrane thickness from tomograms, including a tutorial with 3D visualizations. We analyze thickness variations across organelles and reflect on where to define a membrane boundary. @becklab.bsky.social #teamtomo rupress.org/jcb/article/...
November 6, 2025 at 7:38 AM
Just published! We share an open-source workflow to measure membrane thickness from tomograms, including a tutorial with 3D visualizations. We analyze thickness variations across organelles and reflect on where to define a membrane boundary. @becklab.bsky.social #teamtomo rupress.org/jcb/article/...
If you are planning to do Flipper-TR experiments or FLIM imaging in general, I strongly recommend reading this beautiful method paper first! Lots of information about optimal data acquisition for reliable data analysis! Nice work from Tithi, @rouxlab.bsky.social and @juanmagararc.bsky.social !
🚨 New preprint out!
“Fluorescence lifetime estimation: a practical approach using Flipper-TR FLIM” with Tithi Mandal and @rouxlab.bsky.social
We benchmark and describe step-by-step Flipper-TR FLIM measurements across different set-ups and and strategies.
www.biorxiv.org/content/10.1...
“Fluorescence lifetime estimation: a practical approach using Flipper-TR FLIM” with Tithi Mandal and @rouxlab.bsky.social
We benchmark and describe step-by-step Flipper-TR FLIM measurements across different set-ups and and strategies.
www.biorxiv.org/content/10.1...
Fluorescence lifetime estimation: a practical approach using Flipper-TR FLIM
Flipper-TR is a membrane dye sensitive to lipid packing widely used to probe membrane tension in live cells via fluorescence lifetime imaging microscopy (FLIM). However, no consensus currently exists ...
www.biorxiv.org
October 22, 2025 at 8:54 AM
If you are planning to do Flipper-TR experiments or FLIM imaging in general, I strongly recommend reading this beautiful method paper first! Lots of information about optimal data acquisition for reliable data analysis! Nice work from Tithi, @rouxlab.bsky.social and @juanmagararc.bsky.social !
Reposted by Markku Hakala
🌟 Thrilled to share that my lab’s first publication is now out in @natmetabolism.nature.com. Congrats to the team 🎉
🧠 We discovered that neurons use endogenous fatty acids as an energy fuel, challenging long-standing models of sugars being the exclusive energy source for neurons. 1/3
🧠 We discovered that neurons use endogenous fatty acids as an energy fuel, challenging long-standing models of sugars being the exclusive energy source for neurons. 1/3
October 1, 2025 at 4:11 AM
🌟 Thrilled to share that my lab’s first publication is now out in @natmetabolism.nature.com. Congrats to the team 🎉
🧠 We discovered that neurons use endogenous fatty acids as an energy fuel, challenging long-standing models of sugars being the exclusive energy source for neurons. 1/3
🧠 We discovered that neurons use endogenous fatty acids as an energy fuel, challenging long-standing models of sugars being the exclusive energy source for neurons. 1/3
Reposted by Markku Hakala
Assistant/Associate Professor in Structural Biology, Biophysics or Biological Imaging
www.biozentrum.unibas.ch/open-positio...
#biozentrum #University #Basel #Professor #Structural #Biology #Biophysics #Biological #Imaging
www.biozentrum.unibas.ch/open-positio...
#biozentrum #University #Basel #Professor #Structural #Biology #Biophysics #Biological #Imaging
September 29, 2025 at 2:58 PM
Assistant/Associate Professor in Structural Biology, Biophysics or Biological Imaging
www.biozentrum.unibas.ch/open-positio...
#biozentrum #University #Basel #Professor #Structural #Biology #Biophysics #Biological #Imaging
www.biozentrum.unibas.ch/open-positio...
#biozentrum #University #Basel #Professor #Structural #Biology #Biophysics #Biological #Imaging
Reposted by Markku Hakala
Join us for the first @embo.org meeting on Intracellular mechanics and organelle mechanobiology! Registrations are open, submit your abstract by November 14: we have plenty of slots for short talks! #EMBOMechanobio
Announcing a new @embo.org Workshop on "Intracellular mechanics and organelle mechanobiology" that we are organizing with Michael Krieg and Verena Ruprecht at @icfo.eu (Barcelona) on 16-20 February, 2026. Please, repost and spread the word! 🙏 #EMBOmechanobio
meetings.embo.org/event/26-org...
meetings.embo.org/event/26-org...
Intracellular mechanics and organelle mechanobiology
Mechanobiology is an interdisciplinary field that emerges at the cross-section of biology, physics and engineering. It aims to understand how living cells, tissues and animals sense and respond to me…
meetings.embo.org
September 29, 2025 at 6:12 PM
Join us for the first @embo.org meeting on Intracellular mechanics and organelle mechanobiology! Registrations are open, submit your abstract by November 14: we have plenty of slots for short talks! #EMBOMechanobio
I have a PhD student and an undergrad student positions open at the Institute of Biotechnology @helsinki.fi We are using reconstitution, cell and structural biology to study protein-membrane interactions and membrane microdomain formation. Links to calls below! Feel free to drop a message and share!
September 29, 2025 at 3:45 PM
I have a PhD student and an undergrad student positions open at the Institute of Biotechnology @helsinki.fi We are using reconstitution, cell and structural biology to study protein-membrane interactions and membrane microdomain formation. Links to calls below! Feel free to drop a message and share!
Reposted by Markku Hakala
Halfway to I2K is BACK, friends of all kinds! Last year, 650 people attended 30+ TOTALLY FREE image analysis workshops of all kinds, across many timezones.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
#HappyFluorescenceFriday!
#microscopycommunity- want to learn open source image analysis or share your knowledge to help others? We’ve got a FREE virtual workshop Nov 17-19! Now accepting workshop session applications!
Learn more & sign up: buff.ly/esGIotD
#microscopycommunity- want to learn open source image analysis or share your knowledge to help others? We’ve got a FREE virtual workshop Nov 17-19! Now accepting workshop session applications!
Learn more & sign up: buff.ly/esGIotD
September 23, 2025 at 3:48 PM
Halfway to I2K is BACK, friends of all kinds! Last year, 650 people attended 30+ TOTALLY FREE image analysis workshops of all kinds, across many timezones.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
Reposted by Markku Hakala
Story on our Asgard microtubule paper by Nikki Greenwood: www.quantamagazine.org/tiny-tubes-r...
Thanks to all interviewees🎤
Thanks to all interviewees🎤
Tiny Tubes Reveal Clues to the Evolution of Complex Life | Quanta Magazine
Scientists have identified tubulin structures in primitive Asgard archea that may have been the precursor of our own cellular skeletons.
www.quantamagazine.org
September 10, 2025 at 7:07 AM
Story on our Asgard microtubule paper by Nikki Greenwood: www.quantamagazine.org/tiny-tubes-r...
Thanks to all interviewees🎤
Thanks to all interviewees🎤
Reposted by Markku Hakala
For all of you #Actin folks ... It's out !
Happy to help at anypoint
Happy to help at anypoint
Discover HAK-actin™: A New Tool To Visualize The Actin Cytoskeleton by Expansion Microscopy
• Stronger signal via post-expansion labeling
• Broad cell lines & species compatibility
• Endogenous actin labeling
• Can be multiplexed with other targets
spirochrome.com/product/hak-...
• Stronger signal via post-expansion labeling
• Broad cell lines & species compatibility
• Endogenous actin labeling
• Can be multiplexed with other targets
spirochrome.com/product/hak-...
September 10, 2025 at 9:11 AM
For all of you #Actin folks ... It's out !
Happy to help at anypoint
Happy to help at anypoint
Reposted by Markku Hakala
A new #UExM probe for #Actin!
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Trouble imaging actin in ExM? Meet HAK-Actin, a probe for U-ExM, cryo-ExM & iU-ExM. Enables post-expansion labeling for max signal. www.biorxiv.org/content/10.1...
Soon at @spirochrome.com
Led by O.Mercey and @lreymond.bsky.social, in collab with @dudinlab.bsky.social and @marinelap.bsky.social
Soon at @spirochrome.com
Led by O.Mercey and @lreymond.bsky.social, in collab with @dudinlab.bsky.social and @marinelap.bsky.social
August 28, 2025 at 7:16 AM
A new #UExM probe for #Actin!
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Reposted by Markku Hakala
Postdoc program at the MDC in Berlin, @mdc-berlin.bsky.social : take a look 👇👇
For this call, collaborative projects between two groups will be funded. Take a look at the call and the groups and drop me an email if interested. Share with colleagues too!
www.mdc-berlin.de/postdocs#t-g...
For this call, collaborative projects between two groups will be funded. Take a look at the call and the groups and drop me an email if interested. Share with colleagues too!
www.mdc-berlin.de/postdocs#t-g...
www.mdc-berlin.de
August 4, 2025 at 10:23 AM
Postdoc program at the MDC in Berlin, @mdc-berlin.bsky.social : take a look 👇👇
For this call, collaborative projects between two groups will be funded. Take a look at the call and the groups and drop me an email if interested. Share with colleagues too!
www.mdc-berlin.de/postdocs#t-g...
For this call, collaborative projects between two groups will be funded. Take a look at the call and the groups and drop me an email if interested. Share with colleagues too!
www.mdc-berlin.de/postdocs#t-g...
Reposted by Markku Hakala
Suomen Akatemia tuomitsee jyrkästi tutkijaan kohdistuvan häirinnän ja vihapuheen.
”In Finland, academic freedom is a core value. Researchers must be able to explore, question and share knowledge openly.”
”Let’s protect the freedom to do science, and the people who make it possible.”
”In Finland, academic freedom is a core value. Researchers must be able to explore, question and share knowledge openly.”
”Let’s protect the freedom to do science, and the people who make it possible.”
June 27, 2025 at 8:07 PM
Suomen Akatemia tuomitsee jyrkästi tutkijaan kohdistuvan häirinnän ja vihapuheen.
”In Finland, academic freedom is a core value. Researchers must be able to explore, question and share knowledge openly.”
”Let’s protect the freedom to do science, and the people who make it possible.”
”In Finland, academic freedom is a core value. Researchers must be able to explore, question and share knowledge openly.”
”Let’s protect the freedom to do science, and the people who make it possible.”
Reposted by Markku Hakala
🚨 JOB ALERT 🚨
We're hiring a Research Assistant – no PhD needed!
Join us to explore the molecular mechanisms of receptor sorting in endosomes.
Experience in protein expression/purification, cloning & cell culture desired 🧫🔬
Apply now 👉 www.nature.com/naturecareer...
#STEMCareers #ResearchJobs
We're hiring a Research Assistant – no PhD needed!
Join us to explore the molecular mechanisms of receptor sorting in endosomes.
Experience in protein expression/purification, cloning & cell culture desired 🧫🔬
Apply now 👉 www.nature.com/naturecareer...
#STEMCareers #ResearchJobs
June 23, 2025 at 1:00 PM
🚨 JOB ALERT 🚨
We're hiring a Research Assistant – no PhD needed!
Join us to explore the molecular mechanisms of receptor sorting in endosomes.
Experience in protein expression/purification, cloning & cell culture desired 🧫🔬
Apply now 👉 www.nature.com/naturecareer...
#STEMCareers #ResearchJobs
We're hiring a Research Assistant – no PhD needed!
Join us to explore the molecular mechanisms of receptor sorting in endosomes.
Experience in protein expression/purification, cloning & cell culture desired 🧫🔬
Apply now 👉 www.nature.com/naturecareer...
#STEMCareers #ResearchJobs
The EMBO workshop on ESCRT proteins is up and running at Caux Palace. The view from the hotel room to Lac Leman is rather amazing!
June 23, 2025 at 4:49 PM
The EMBO workshop on ESCRT proteins is up and running at Caux Palace. The view from the hotel room to Lac Leman is rather amazing!
I'm grateful for the Research Council of Finland for granting me the Academy Research fellowship! After getting over the shock I will soon move back to Finland to start as a group leader at the Institute of Biotechnology @helsinki.fi. Looking for a PhD student soon! www.aka.fi/en/about-us/...
RCF winter call results: funding decisions in biosciences, health and environmental research
The Research Council of Finland’s Scientific Council for Biosciences, Health and the Environment has granted funding for 38 Academy Research Fellowships, 12 Clinical Researchers and 76 Academy P...
www.aka.fi
June 22, 2025 at 9:18 AM
I'm grateful for the Research Council of Finland for granting me the Academy Research fellowship! After getting over the shock I will soon move back to Finland to start as a group leader at the Institute of Biotechnology @helsinki.fi. Looking for a PhD student soon! www.aka.fi/en/about-us/...
Reposted by Markku Hakala
🧪Hey Sciencers,
We're looking to make a library of 50-100 plasmids that differ in ~60bp stretch. The differences will be designed (not random). The library will then be screened for a phenotype.
What is the best way to do this?
Cost is an issue.
We're looking to make a library of 50-100 plasmids that differ in ~60bp stretch. The differences will be designed (not random). The library will then be screened for a phenotype.
What is the best way to do this?
Cost is an issue.
June 16, 2025 at 7:39 PM
🧪Hey Sciencers,
We're looking to make a library of 50-100 plasmids that differ in ~60bp stretch. The differences will be designed (not random). The library will then be screened for a phenotype.
What is the best way to do this?
Cost is an issue.
We're looking to make a library of 50-100 plasmids that differ in ~60bp stretch. The differences will be designed (not random). The library will then be screened for a phenotype.
What is the best way to do this?
Cost is an issue.
Reposted by Markku Hakala
It's fellowship season in the EU. If you want to talk and join our group at the amazing MDC in Berlin on a fellowship, please write me an email.
We do cryo-EM/ET, membrane proteins, data science/AI, our work: scholar.google.com/citations?so...
Fellowships: Marie Curie, EMBO, HFSP, Humboldt...
We do cryo-EM/ET, membrane proteins, data science/AI, our work: scholar.google.com/citations?so...
Fellowships: Marie Curie, EMBO, HFSP, Humboldt...
scholar.google.com
May 19, 2025 at 12:44 PM
It's fellowship season in the EU. If you want to talk and join our group at the amazing MDC in Berlin on a fellowship, please write me an email.
We do cryo-EM/ET, membrane proteins, data science/AI, our work: scholar.google.com/citations?so...
Fellowships: Marie Curie, EMBO, HFSP, Humboldt...
We do cryo-EM/ET, membrane proteins, data science/AI, our work: scholar.google.com/citations?so...
Fellowships: Marie Curie, EMBO, HFSP, Humboldt...
Reposted by Markku Hakala
🧵5 Top Free Alternatives to BioRender for Scientific Illustrations!
These five websites offer free scientific illustrations for biologists. Great for presentations, research papers and other research communication needs.
Save and share the post!
These five websites offer free scientific illustrations for biologists. Great for presentations, research papers and other research communication needs.
Save and share the post!
May 13, 2025 at 7:55 PM
🧵5 Top Free Alternatives to BioRender for Scientific Illustrations!
These five websites offer free scientific illustrations for biologists. Great for presentations, research papers and other research communication needs.
Save and share the post!
These five websites offer free scientific illustrations for biologists. Great for presentations, research papers and other research communication needs.
Save and share the post!
Reposted by Markku Hakala
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 Markku Hakala
Fresh from the press! @lankylaste.bsky.social, @guijacquemet.bsky.social and I put together a practical guide on how to develop software for life science applications.
Practical recommendations for developing software for life science applications
ABSTRACT. Developing user-friendly image analysis software is essential for advancing biological and life science research. However, the interdisciplinary gap between software developers and life scie...
doi.org
March 17, 2025 at 9:44 AM
Fresh from the press! @lankylaste.bsky.social, @guijacquemet.bsky.social and I put together a practical guide on how to develop software for life science applications.
Reposted by Markku Hakala
ESCRT-III is an ancient complex, present in Archaea, with only two proteins and all membrane remodelling functions. Great work by @javierespadas.bsky.social, @diorgeps.bsky.social, @sami-c.bsky.social, thanks to the @buzzbaum.bsky.social lab! Drawing by Julie Polge.
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
February 10, 2025 at 7:36 AM
ESCRT-III is an ancient complex, present in Archaea, with only two proteins and all membrane remodelling functions. Great work by @javierespadas.bsky.social, @diorgeps.bsky.social, @sami-c.bsky.social, thanks to the @buzzbaum.bsky.social lab! Drawing by Julie Polge.
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Markku Hakala
Exciting news! #MembraneTrafficking online seminars with @felixmendu.bsky.social @franbottanelli.bsky.social and me are back!
Check the spectacular Jan-April 2025 lineup.
Details (Zoom links, calendar invites) on the mailing list, Slack group & website: felixcampelo.wixsite.com/membranetraf...
Check the spectacular Jan-April 2025 lineup.
Details (Zoom links, calendar invites) on the mailing list, Slack group & website: felixcampelo.wixsite.com/membranetraf...
January 15, 2025 at 7:59 PM
Exciting news! #MembraneTrafficking online seminars with @felixmendu.bsky.social @franbottanelli.bsky.social and me are back!
Check the spectacular Jan-April 2025 lineup.
Details (Zoom links, calendar invites) on the mailing list, Slack group & website: felixcampelo.wixsite.com/membranetraf...
Check the spectacular Jan-April 2025 lineup.
Details (Zoom links, calendar invites) on the mailing list, Slack group & website: felixcampelo.wixsite.com/membranetraf...
Reposted by Markku Hakala
Continuing the peer review discussion: @katherine-brown.bsky.social on principles for effective peer review:
1) Be respectful to authors
2) Request reasonable revisions
3) Focus on whether data support the conclusions
4) Be transparent about expertise limits
thenode.biologists.com/peer-review-...
1) Be respectful to authors
2) Request reasonable revisions
3) Focus on whether data support the conclusions
4) Be transparent about expertise limits
thenode.biologists.com/peer-review-...
Peer review - why we need it and what we need - the Node
Hopefully some of you will have seen the recent editorial in Development on our approach to peer review. If you haven't read it yet, please do take a
thenode.biologists.com
December 17, 2024 at 7:16 AM
Continuing the peer review discussion: @katherine-brown.bsky.social on principles for effective peer review:
1) Be respectful to authors
2) Request reasonable revisions
3) Focus on whether data support the conclusions
4) Be transparent about expertise limits
thenode.biologists.com/peer-review-...
1) Be respectful to authors
2) Request reasonable revisions
3) Focus on whether data support the conclusions
4) Be transparent about expertise limits
thenode.biologists.com/peer-review-...