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Micha Birklbauer

@michabirklbauer

Hello there! Bioinformatician working in Computational Proteomics. More about me: https://michabirklbauer.me

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30.03.2025
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Latest posts by Micha Birklbauer @michabirklbauer

ProtAIomics

2 PhD positions re opened in the ProtAIomics MSCA Doctoral Network
Interested in AI, proteomics, and international doctoral training?
πŸ‘‰ Check the details and apply via the ProtAIomics website www.protaiomics.eu
#Proteomics #ArtificialIntelligence #MSCA #PhDOpportunities #FullyFundedPhD

09.03.2026 14:18 πŸ‘ 3 πŸ” 3 πŸ’¬ 0 πŸ“Œ 0

Nobody should have to sacrifice their identity by submitting selfies or personal documents in order to be an Android Developer.

25.02.2026 12:26 πŸ‘ 232 πŸ” 51 πŸ’¬ 6 πŸ“Œ 1
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Last 2 weeks to submit your abstract for Swiss Proteomics Meeting 2026!
πŸ“… 23–24 Apr 2026 | Bern

Talks by Anne-Ruxandra Carvunis (ETH Zurich) and Jesper Olsen (Univ. of Copenhagen).

Abstracts due 22 Feb
More info: buff.ly/xyQYBzd...

09.02.2026 10:38 πŸ‘ 1 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0

3/3 If one still wants to produce reliable software which needs significant review if vibe coded, the net gain isn't actually that big (and that is not including ethical AI concerns, cognitive loss, and the price jacking that is coming in the next years).

30.01.2026 18:11 πŸ‘ 2 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

2/3 As a software engineer it just makes me code faster, but review takes significantly longer and errors are harder to catch.

30.01.2026 18:11 πŸ‘ 0 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

1/3 My general take is, that vibe coding is mostly powerful and enabling for people who are not proficient with coding - which is especially dangerous because they can't judge when code is wrong unless it has immediately visible effects.

30.01.2026 18:11 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

At least one person (the developer) has verified the code of a non-"vibe coded" package. How many "authors" of vibe coded tools will have read and understood the entirety of the produced codebase? Also review of code can be a lot harder then writing code.

30.01.2026 18:03 πŸ‘ 1 πŸ” 0 πŸ’¬ 3 πŸ“Œ 0

It is my great honor to announce that registration for the 7th ESCP Single Cell Proteomics Conference is now open: lnkd.in/e4iyiQjf
With around 250 participants, it is one of the largest SCP conferences worldwide. We are also proud to announce that there is no participation fee for our conference.

28.01.2026 16:23 πŸ‘ 18 πŸ” 10 πŸ’¬ 2 πŸ“Œ 1
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πŸ§ͺ Online (Zoom)
πŸ“… 23 April 2026
⏰ 14:00–16:00 CEST

βœ… Free registration is mandatory!

πŸ‘‰More information in comments!

πŸ”— ECR Day Registration: docs.google.com/forms/d/e/1F...
πŸ”— Science Slam Registration: docs.google.com/forms/d/e/1F...

#Proteomics #EarlyCareerResearchers #YPIC #EuPA#EuBIC

21.01.2026 09:26 πŸ‘ 10 πŸ” 7 πŸ’¬ 1 πŸ“Œ 0
May Institute – Computation and statistics for mass spectrometry and proteomics

Applications are now open for @olgavitek.bsky.social 's May Intitute on computation and statistics for mass spectrometry and proteomics at @northeasternu.bsky.social !

--> computationalproteomics.khoury.northeastern.edu

20.01.2026 23:26 πŸ‘ 20 πŸ” 13 πŸ’¬ 1 πŸ“Œ 0
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Join us for the #Ubiquitin & Friends Symposium 2026, April 29-30, in Vienna!
Fantastic guest speakersπŸ‘‡ & many slots for talks from abstracts, flash-talks & posters. Lots of opportunities to network. Register now to save your spot!
➑️ www.protein-degradation.org/symposium/
#ubfriends2026

10.01.2026 00:47 πŸ‘ 34 πŸ” 21 πŸ’¬ 1 πŸ“Œ 3
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PhD position reopened in ProtAIomics DN
πŸ”— Project details:
www.protaiomics.eu/project/dc12...
πŸ‘©β€πŸ”¬ Meet the PI:
www.protaiomics.eu/supervisor/v...
πŸ‘‰ Apply here:
www.protaiomics.eu/call-for-app...
#PhDposition #MSCA #Bioinformatics #Proteomics #ArtificialIntelligence #DoctoralTraining #ResearchCareers

08.01.2026 13:09 πŸ‘ 4 πŸ” 8 πŸ’¬ 0 πŸ“Œ 0
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Finnish Proteomics Society has opened the early bird registration for the 2026 Finnish Proteomics Symposium πŸ₯³
Don’t miss this opportunity to share your research, connect with leading experts, and explore the latest advancements in proteomics in picturesque surroundings of Nuuksio National Park.

23.12.2025 08:16 πŸ‘ 2 πŸ” 2 πŸ’¬ 1 πŸ“Œ 0
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Unified down-stream analysis of crosslinking mass spectrometry results with pyXLMS www.biorxiv.org/cont...

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#proteomics #prot-preprint

22.12.2025 12:40 πŸ‘ 4 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0

Unified down-stream analysis of crosslinking mass spectrometry results with pyXLMS https://www.biorxiv.org/content/10.64898/2025.12.18.695169v1

22.12.2025 10:46 πŸ‘ 2 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0
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⏱️ Ten days left. Time flies, so apply now πŸ‘‰ www.protaiomics.eu
Don’t miss your chance to join ProtAIomics and a vibrant international community in AI powered proteomics.
#ResearchCareers #Proteomics #ArtificialIntelligence #MSCA #PhDOpportunities #FullyFundedPhD

21.11.2025 13:39 πŸ‘ 4 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0
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Breaking barriers in crosslinking mass spectrometry with enhanced throughput and sensitivity using Orbitrap Astral - Nature Communications Mapping protein interactions requires sensitive mass spectrometry. Here, the authors show that the Orbitrap Astral, combined with optimized chromatography, improves detection of low-abundance crosslin...

Congratulations to my research partners at the Proteomics Tech Hub at the @impvienna.bsky.social on their newest publication on the optimization of crosslinking on the Orbitrap Astral! Happy that I was able to contribute! πŸ₯³
www.nature.com/articles/s41...

12.11.2025 13:35 πŸ‘ 2 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
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New paper alert! Researchers at the Proteomics Tech Hub at the @viennabiocenter.bsky.social have developed a new cross-linking mass spectrometry workflow that allows scientists to more easily detect and study protein interactions that were previously undetectable. More: bit.ly/4nV5n1w

12.11.2025 09:25 πŸ‘ 8 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0
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GitHub - hadley/genzplyr: dplyr but make it bussin fr fr no cap dplyr but make it bussin fr fr no cap. Contribute to hadley/genzplyr development by creating an account on GitHub.

Do you teach #rstats? Do your students complain about how lame and old-fashioned dplyr is? Don't worry: I have the solution for you: github.com/hadley/genzp....

genzplyr is dplyr, but bussin fr fr no cap.

06.11.2025 23:25 πŸ‘ 460 πŸ” 167 πŸ’¬ 42 πŸ“Œ 55
Register now!

Five days of keynotes, workshops, flash talks, posters, and more on computational mass spectrometry

Confirmed keynote speakers
Armin Soleymaniniya  Β·  Arthur Declercq  Β·  Claire Koenig Β·  Hannah Boekweg  Β·  Jonas Scheid  Β·  Karel Berka  Β·  Matthias Anagho-Mattanovich  Β·  Roman Bushuiev  Β·  Valdemaras Petrosius

πŸ“† 19-23 January 2026
πŸ“ Harrachov, Czechia

Register now! Five days of keynotes, workshops, flash talks, posters, and more on computational mass spectrometry Confirmed keynote speakers Armin Soleymaniniya Β· Arthur Declercq Β· Claire Koenig Β· Hannah Boekweg Β· Jonas Scheid Β· Karel Berka Β· Matthias Anagho-Mattanovich Β· Roman Bushuiev Β· Valdemaras Petrosius πŸ“† 19-23 January 2026 πŸ“ Harrachov, Czechia

Registration is now open for the EuBIC-MS Winter School 2026!

Join us in Harrachov, Czechia for a week of keynotes, workshops, and networking on computational MS.

Info and registration: eubic-ms.org/events/2026-...

#EuBIC2026 #MassSpectrometry #MassSpec #Bioinformatics #Proteomics #Metabolomics

16.10.2025 09:36 πŸ‘ 15 πŸ” 11 πŸ’¬ 1 πŸ“Œ 2
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Last week we had our yearly organizational meeting, this time in Vienna, Austria. We had 3 great days discussing the activities of the past year and planning the upcoming ones. Thanks to everyone who joined and contributed to a great meeting!

03.10.2025 11:33 πŸ‘ 6 πŸ” 3 πŸ’¬ 0 πŸ“Œ 0
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The 6th European Symposium on Single Cell Proteomics took place on Campus this week, once again drawing a big international crowd eager to experience interesting talks, poster presentations, networking & knowledge exchange!

Enjoy these snapshots and make sure to sign up next year!
#viennabiocenter

29.08.2025 08:54 πŸ‘ 3 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0

Also, I know that in DIA-NN there is a "threads" parameter that can be set, for the i9 that should be at least at 24 (and the OS hopefully schedules that to be each on separate cores). Maybe that helps :)

19.08.2025 22:37 πŸ‘ 1 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0

Haha pretty sure they'd be happy to hear about it though. As a dev I can confirm that it's hard to keep track of all the changes in the hardware world ;)

19.08.2025 22:36 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

Might be because the software maybe isn't adapted to properly use all the cores in the new Intel CPUs yet? E.g. no more hyper threading on Intel CPUs and if it only uses performance cores there will be a huge performance loss compared to Ryzen CPUs. Probably worth asking the devs.

19.08.2025 20:20 πŸ‘ 1 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0
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In vivo crosslinking and effective 2D enrichment for proteome wide interactome studies Communications Chemistry, Published online: 13 August 2025; doi:10.1038/s42004-025-01644-6Cross-linking mass spectrometry faces challenges due to low reaction efficiencies and complex matrices in protein–protein interaction (PPI) studies. Here, the authors enhance an Azide-A-DSBSO-based in vivo crosslinking workflow with affinity enrichment and size exclusion chromatography, yielding over 5000 crosslinks from K562 cells and generating a comprehensive PPI network.

Just out: In vivo crosslinking and effective 2D enrichment for proteome wide interactome studies

13.08.2025 17:11 πŸ‘ 3 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0

Excited to share our latest in vivo crosslinking workflow using a dual enrichment strategy: Over 5000 crosslinks and 56 novel PPls- Huge thanks to the amazing team: Philipp BrΓ€uer, Laszlo Tirian, FrΓ€nze MΓΌller, Karl Mechtler at the Vienna BioCenter who made this possible! doi.org/10.1038/s420...

16.08.2025 19:18 πŸ‘ 13 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0
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In vivo crosslinking and effective 2D enrichment for proteome wide interactome studies www.nature.com/artic...

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#proteomics #prot-paper

17.08.2025 09:20 πŸ‘ 3 πŸ” 4 πŸ’¬ 0 πŸ“Œ 0
6th ESCP 2025 – APMA

The deadline to submit abstracts and register for this years symposium on single cell proteomics #ESCP25 in Vienna is approaching this Sunday! This year we additionally host a workshop for deep visual proteomics and a Thermo User Meeting.

25.07.2025 08:42 πŸ‘ 7 πŸ” 3 πŸ’¬ 1 πŸ“Œ 0
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Time to get signed up for the Symposium on Structural Proteomics! This time at @humantechnopole.bsky.social in Milan 6th-8th October Full speaker lineup announced. Thanks to @thermofishersci.bsky.social @brukercorporation.bsky.social, Affipro and MSVision for support
Info
ssp2025.squarespace.com

22.07.2025 15:12 πŸ‘ 7 πŸ” 5 πŸ’¬ 0 πŸ“Œ 3