Sign in

tmoeckli

@tmoeckli.bsky.social
498 followers 432 following 53 posts

#Heidelberg based PhD student working with #protein mass spectrometry to power mathematical models related to #interferon signaling Klingmüller lab - www.dkfz.de/en/systems-biology-of-s…

PostsRepliesMedia
tmoeckli @tmoeckli.bsky.social · 26/07/2026
I firmly believe that well-documented datasets must be re-analysed! Too many projects needlessly generate more data just to chase arbitrary benchmarks — an extra 2% accuracy or a few more identified proteins. We can be so much smarter! 🧵
100
tmoeckli @tmoeckli.bsky.social · 02/07/2026
Every time I read a paper that challenges our view of the central dogma, I'm amazed by the complexity of biology and almost overwhelmed by the challenge of unraveling this compelixity. Tsour et al., Nature (2026) - www.nature.com/articles/s41... (1/3)
nature.com
Alternate RNA decoding results in stable and abundant proteins in mammals - Nature
Alternate RNA decoding, an understudied process, leads to peptide sequence modifications that can have substantial functional effects on protein stability, tissue-specific proteomes and dise...
121
tmoeckli @tmoeckli.bsky.social · 27/06/2026
“Künstliche Intelligenz und reale Außenwelt” Planck, M; Naturwissenschaftern (1940)
000
Reposted by tmoeckli
Reese Richardson @reeserichardson.bsky.social · 05/06/2026
The Thermo Fisher situation keeps getting worse. We've now collected 450+ problematic images presented as verification data in TF's antibody catalog. This includes: 🖌️ Dozens more images with duplications or painting 🖨️ Hundreds of blots that all share the same background (behold slideshow below)
18590367
Reposted by tmoeckli
Science News @scinews.bsky.social · 25/05/2026
At one point, a stu­dent joked that if I kept “editing” so much, I might as well submit the article under my own name and save us both time.
1214
Reposted by tmoeckli
Sholto David @sholtodavid.bsky.social · 17/05/2026
Surprised to discover that Thermo Fisher appears to show a fake western blot for the validation of one of their p53 antibodies. I've added a diagram to show the very similar bands. This does not appear to be one of the "published figures" but their own internal data.
22272114
Reposted by tmoeckli
Deutsches Krebsforschungszentrum (DKFZ) @dkfz.bsky.social · 27/03/2026
Dreaming of a career in cancer research? Join the International PhD Program at DKFZ - Germany’s largest biomedical research center. Explore #cancerresearch including #cancerbiology, #bioinformatics, #epidemiology & #medicalphysics. The Summer Selection is open now 👉 apply here: t1p.de/hl56b
11111
Reposted by tmoeckli
julesh @julesh.mathstodon.xyz.ap.brid.gy · 21/02/2026
Downside of LLM culture that I have not seen mentioned anywhere before: The best way to understand something is to explain it to someone else, and people don't ask people to explain things anymore
046
Reposted by tmoeckli
Nikolai Slavov @slavov-n.bsky.social · 30/12/2025
Poorly performing antibodies have plagued biomedical sciences for decades. This article explores alternatives, hoping for specific protein binders: The antibodies don’t work! The race to rid labs of molecules that ruin experiments www.nature.com/articles/d41...
nature.com
The antibodies don’t work! The race to rid labs of molecules that ruin experiments
Poorly performing antibodies have plagued biomedical sciences for decades. Several fresh initiatives hope to change this.
1104
Reposted by tmoeckli
PastelBio @pastelbio.bsky.social · 21/12/2025
Benchmarking Software for DDA-PASEF Immunopeptidomics www.sciencedirect.co... --- #proteomics #prot-paper
041
Reposted by tmoeckli
Niema Moshiri @niema.net · 17/12/2025
Holy fuck, am I reading this correctly? Are they going to do a single-blind RCT (i.e., some babies will get placebo instead of HepB vax and their parents won't know)??? This seems insanely unethical, like Tuskegee levels of unethical public-inspection.federalregister.gov/2025-23245.pdf
public-inspection.federalregister.gov
10266102
Reposted by tmoeckli
Manlio De Domenico @manlius.bsky.social · 16/12/2025
🚨 What if evolution is the ”law”… and networks are the machines that do the work? In this paper (just published) I try to formalize how living systems are non-equilibrium, information-processing, adaptive matter. With a great biological flavor! 🧪🌐🌍🧬🦠 👉 iopscience.iop.org/article/10.1... 🧵 1/
813244
Reposted by tmoeckli
Nature Communications @natcomms.nature.com · 22/11/2025
This week is World #AntimicrobialResistance Awareness week This article collection spans the breadth of #AMR across pathogens (bacteria, viruses, fungi, parasites), covers epidemiological monitoring, diagnostics, treatment, etc
bit.ly
Antimicrobial resistance: a silent pandemic
SPONSOR FEATURES
061
Reposted by tmoeckli
Will Fondrie @willfondrie.com · 19/11/2025
Affinity has been my favorite design software for awhile now. Now that its free is even better!
152
tmoeckli @tmoeckli.bsky.social · 11/11/2025
New paper from the @klingmuelab.bsky.social & Timmer labs out in @cp-cellsystems.bsky.social: #Diclofenac & #acetaminophen unexpectedly shape #IL-6 and #hepcidin signaling in #liver cells. 🔗 doi.org/10.1016/j.ce... 👇 Thread with key findings
130
Reposted by tmoeckli
PastelBio @pastelbio.bsky.social · 07/10/2025
msBayesImpute: A Versatile Framework for Addressing Missing Values in Biomedical Mass Spectrometry Proteomics Data www.biorxiv.org/cont... --- #proteomics #prot-preprint
052
Reposted by tmoeckli
John Lees @johnlees.bacpop.org · 15/08/2025
My PhD student @leonielorenz.bsky.social (with Eva Geissen) has made this nice (free) online course to introduce mathematical modelling for biology: www.ebi.ac.uk/training/onl... Including both molecular and epidemiological examples
ebi.ac.uk
Mathematical modelling for biologists - Modelling concepts in biological research
Mathematical modelling for biologists - Modelling concepts in biological research
611357
Reposted by tmoeckli
DeBerardinis Lab at UT Southwestern Medical Center @rjdlab.bsky.social · 30/07/2025
1/New paper on peroxisome assembly, reporting the detailed mechanism of PEX39, a new peroxin involved in PTS2 protein transport. Fantastic work by ‪@walterwchen.bsky.social‬ and a dream team of collaborators, as explained below. www.nature.com/articles/s41...
nature.com
PEX39 facilitates the peroxisomal import of PTS2-containing proteins - Nature Cell Biology
Chen et al. show that PEX39 cooperates with PEX7 in the peroxisomal import of proteins containing a PTS2 site and uncover an (R/K)PWE motif in PEX39 and PEX13 that binds to PEX7 and facilitates the im...
3347
Reposted by tmoeckli
PastelBio @pastelbio.bsky.social · 31/07/2025
SynchroSep-MS: Parallel LC Separations for Multiplexed Proteomics pubs.acs.org/doi/10.... --- #proteomics #prot-paper
001
Reposted by tmoeckli
Walter W. Chen, MD, PhD @walterwchen.bsky.social · 30/07/2025
Our work on new paradigm in peroxisome biogenesis and PEX39 (1st human peroxisomal biogenesis protein (peroxin/PEX) found in > 20 yr) is out in @natcellbio.nature.com! Equal collab w/Tony Rodrigues (Jorge Azevedo lab), @dwendscheck.bsky.social (Bettina Warscheid lab) www.nature.com/articles/s41...
nature.com
PEX39 facilitates the peroxisomal import of PTS2-containing proteins - Nature Cell Biology
Chen et al. show that PEX39 cooperates with PEX7 in the peroxisomal import of proteins containing a PTS2 site and uncover an (R/K)PWE motif in PEX39 and PEX13 that binds to PEX7 and facilitates the im...
53715
tmoeckli @tmoeckli.bsky.social · 30/07/2025
🥳🥳🥳 Congratulations to everyone involved and in particular to @dwendscheck.bsky.social! I am soooo happy to see that this story is online now and that I could contribute to it ❤️
020
tmoeckli @tmoeckli.bsky.social · 13/07/2025
📈 Last week I had the chance to present my project on the influence of #interferon on antigen processing by the proteasome at the 2nd #Heidelberg Interferon Symposium! 🦠🧬🧫 1/3
171
Reposted by tmoeckli
PRIDE Database @pride-ebi.bsky.social · 12/07/2025
PXD051501 🚨 Pex39 facilitates peroxisomal import of PTS2 proteins – ScPex18 AP-MS data 🚨 New dataset alert! 🚨
001
Reposted by tmoeckli
The Binder Lab (DKFZ Heidelberg) @thebinderlab.bsky.social · 11/07/2025
Great first day at the #IFNSymposiumHD, with BBQ dinner, drinks and especially: great people and discussions 😊 Now looking forward to the second day, which will be kicked off by @meganstanifer.bsky.social shortly!
072
Reposted by tmoeckli
Nikolai Slavov @slavov-n.bsky.social · 30/06/2025
Let's leave behind simplistic & naive notions. .
3234
tmoeckli @tmoeckli.bsky.social · 25/06/2025
📣Attention please! 🦠🧫🧬Interferon researcher in and around Heidelberg are kindly welcome to register for the 2nd Interferon at DKFZ symposium in July! 📜Submit your abstract until tomorrow here: indico.dkfz.de/event/1320/
020
Reposted by tmoeckli
PastelBio @pastelbio.bsky.social · 18/06/2025
A unified pan-cancer proteome atlas www.cell.com/cancer-... --- #proteomics #prot-paper
013
Reposted by tmoeckli
Andy Tseng @andytseng.bsky.social · 08/06/2025
@miquai.bsky.social and Robert Hazen explore a bold new law of nature: complexity steadily rises - not just in biology, but in everything from rocks to life. A fascinating weekend read. Thoughts welcome. #Science #Biology #Evolution #LawsOfNature #FunctionalInformation #ResearchSky #WeekendReads
wired.com
A New Law of Nature Attempts to Explain the Complexity of the Universe
A novel suggestion that complexity increases over time, not just in living organisms but in the nonliving world, promises to rewrite notions of time and evolution.
197
tmoeckli @tmoeckli.bsky.social · 06/06/2025
Start your day right with 1,184,046 error messages 😂
050
Reposted by tmoeckli
Andrew Leduc @andrewleduc.bsky.social · 30/05/2025
More evidence for the role of protein degradation in significantly shaping the proteome of brain tissue!
085
Reposted by tmoeckli
Peter Gleick @petergleick.bsky.social · 31/05/2025
There are 2 previous historical cases of countries destroying their science and universities, crippling them for decades: Lysenkoism in the USSR and Nazi Germany. The Trump administration will be the 3rd. It's not just budgets but research, institutions, expertise, and training the next generation.
Graphs showing 25 years of budgets for the National Institute of Health, NASA, and the NSF. In all cases, the proposed budget for next year is far, far below any year of the previous quarter century.
449151557830
Reposted by tmoeckli
Andrew Burgess @drandrewburgess.bsky.social · 27/05/2025
Love today’s #xkcd comic on #MassSpec 🤣
BEFORE THE BATHROOM SCALE WAS INVENTED, THE ONLY
WAY TO WEIGH PEOPLE WAS MASS SPECTROMETRY.
419258
Reposted by tmoeckli
PLOS Biology @plosbiology.org · 08/05/2025
The antiviral cytokine interferon is thought to act through the induction of hundreds of genes. In this #PLOSBiology Perspective, @jschoggins.bsky.social highlights recent findings that instead suggest distinct viruses are targeted by small subsets of the induced gene repertoire. 🧪 plos.io/4m7hOYi
plos.io
Old cytokine, new tricks: A refined model of interferon’s antiviral activity
Interferon is a central component of the vertebrate antiviral immune response, thought to act through induction of hundreds of interferon-stimulated genes, with some redundancy. This Perspective highl...
2123
Reposted by tmoeckli
The Binder Lab (DKFZ Heidelberg) @thebinderlab.bsky.social · 09/05/2025
Second Heidelberg Interferons Symposium coming up!! If you are based in HD or Mannheim (@dkfz.bsky.social, @uniheidelberg.bsky.social, @hlsalliance.bsky.social, @embl.org,...) and interested in any facet of these incredible #cytokines, join us on 🗓️ July 10/11 🏫 Marsilius Kolleg ✍🏻 bit.ly/IFN2025
Advertising flyer for the symposium, keynote lectures by Nadine Laguette from Montepellier (Crosstalk between DNA damage response and DNA sensing), Megan Stanifer from Florida (Lambda interferon in the gut epithelium) and Alessandra Mortellaro from Milano (type I interferons in hematopoiesis), plus local keynotes by Ana Martín-Villalba, Marieke Essers and Stefan Jordan.
51415
Reposted by tmoeckli
Rafeeque Mavoor @rafeequemavoor.bsky.social · 13/05/2025
🧵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!
32679350
tmoeckli @tmoeckli.bsky.social · 09/05/2025
💫 Great Symposium ahead! If you are interested in Interferons, come and join 🥳
030
Reposted by tmoeckli
Nikolai Slavov @slavov-n.bsky.social · 28/04/2025
Applications with short and medium term payoff are fruitful and needed. They are easier to understand, especially by non experts. The benefits of basic research are harder to understand. Understanding & appreciation require more expertise and longer term perspective.
032
Reposted by tmoeckli
Yasset Perez-Riverol @ypriverol.bsky.social · 25/04/2025
ibaqpy: A scalable #Python package for baseline quantification in proteomics leveraging #SDRF metadata www.sciencedirect.com/science/arti.... We continue our effort to provide tools and algorithms that leverage SDRF metadata to perform quantitative proteomics analysis.
sciencedirect.com
Ibaqpy: A scalable Python package for baseline quantification in proteomics leveraging SDRF metadata
Intensity-based absolute quantification (iBAQ) is essential in proteomics as it allows for the assessment of a protein's absolute abundance in various…
1129
Reposted by tmoeckli
Lindsay K Pino @lindsaykpino.com · 07/03/2025
DDM (n-dodecyl β-D-maltoside). This seems too good to be true?! It's giving us a huge boost in hydrophobic peptide signal.
13364
tmoeckli @tmoeckli.bsky.social · 13/02/2025
For establishing a new collaboration and to explore the role of #interferon on the #immunopeptidome in #hepatoma Julian Beyrle (Tenzer Lab, HI-TRON in Mainz) and I received a collaborative research grant from @dkfz.bsky.social! Many thanks to selection committee for believing in this project 💙
140
tmoeckli @tmoeckli.bsky.social · 08/02/2025
To all of my #teamMassSpec folks, The „proteomics“ wikipedia article reads like a relict. Maybe a few of us should put some effort to update it 🤔 en.m.wikipedia.org/wiki/Proteom...
en.m.wikipedia.org
Proteomics - Wikipedia
152
Reposted by tmoeckli
GigaScience Journal @gigascience.bsky.social · 03/02/2025
Looking for a handy list of #OpenAccess journals and publishers in the biological/biomedical and computational biology space? Want to follow journals sharing scientific content without restrictions or paywalls? Well look no further go.bsky.app/5WRrHpw
012
Reposted by tmoeckli
WHO @who.int · 28/01/2025
🧵 STATEMENT: WHO expresses deep concern on the implications of the immediate funding pause for #HIV programmes in low- and middle-income countries. These programmes provide access to life-saving HIV therapy to more than 30 million people worldwide. Read more bit.ly/42yxxIz 1/5
WHO statement on potential global threat to people living with HIV
18481592490
tmoeckli @tmoeckli.bsky.social · 16/12/2024
I hate it when polls are represented as a fixed number without any information about the spread of the error! Not about the actual poll results (although they are shocking enough), but can we take a second to appreciate that „Spiegel online“ finally started to show individual polls as datapoints!
220
tmoeckli @tmoeckli.bsky.social · 02/12/2024
More and more DKFZ scientists are joining Bluesky! Here is a starter pack with the intention to connect us 💙
020
Reposted by tmoeckli
Alexis Verger 🧬🧫🧪 @alexis-verger.cpesr.fr · 25/11/2024
Look who's here @pnas.org ✔️ @science.org ✔️ @naturecellbiology.bsky.social ✔️ @natrevgenet.bsky.social ✔️ @naturebiotech.bsky.social ✔️ @naturemicrobiol.bsky.social ✔️ @naturechemistry.bsky.social ✔️ @genesdev.bsky.social ✔️ @cellchembiol.bsky.social ✔️ @genomeresearch.bsky.social ✔️ @jcellbiol.bsky.social ✔️
34503237
Reposted by tmoeckli
tmoeckli @tmoeckli.bsky.social · 19/11/2024
Hello DKFZ people! I hope this list will grow and help all new bluesky members from our institute to find each other here ☺️ go.bsky.app/V64sJYM
7145
tmoeckli @tmoeckli.bsky.social · 19/11/2024
Hello DKFZ people! I hope this list will grow and help all new bluesky members from our institute to find each other here ☺️ go.bsky.app/V64sJYM
7145
Reposted by tmoeckli
Oded Rechavi @odedrechavi.bsky.social · 19/11/2024
Hope I'm the first to post this all time classic on this platform
392910620
tmoeckli @tmoeckli.bsky.social · 18/11/2024
📣To all the people from @dkfz.bsky.social (DKFZ Heidelberg): I could only find a few of us here on bluesky 🦋 but I would to make a starter pack. Can you help me find the rest of us? @mphartmann.bsky.social @milsommick.bsky.social @thebinderlab.bsky.social @dblipka.bsky.social
361