tmoeckli @tmoeckli.bsky.social · 26/07/2026I 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 · 02/07/2026Every 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.comAlternate RNA decoding results in stable and abundant proteins in mammals - NatureAlternate 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 tmoeckliReese Richardson @reeserichardson.bsky.social · 05/06/2026The 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 tmoeckliScience News @scinews.bsky.social · 25/05/2026At 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 tmoeckliSholto David @sholtodavid.bsky.social · 17/05/2026Surprised 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 tmoeckliDeutsches Krebsforschungszentrum (DKFZ) @dkfz.bsky.social · 27/03/2026Dreaming 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 tmoecklijulesh @julesh.mathstodon.xyz.ap.brid.gy · 21/02/2026Downside 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 tmoeckliNikolai Slavov @slavov-n.bsky.social · 30/12/2025Poorly 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.comThe antibodies don’t work! The race to rid labs of molecules that ruin experimentsPoorly performing antibodies have plagued biomedical sciences for decades. Several fresh initiatives hope to change this. 1104
Reposted by tmoeckliPastelBio @pastelbio.bsky.social · 21/12/2025Benchmarking Software for DDA-PASEF Immunopeptidomics www.sciencedirect.co... --- #proteomics #prot-paper 041
Reposted by tmoeckliNiema Moshiri @niema.net · 17/12/2025Holy 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.pdfpublic-inspection.federalregister.gov 10266102
Reposted by tmoeckliManlio 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 tmoeckliNature Communications @natcomms.nature.com · 22/11/2025This 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, etcbit.lyAntimicrobial resistance: a silent pandemicSPONSOR FEATURES 061
Reposted by tmoeckliWill Fondrie @willfondrie.com · 19/11/2025Affinity has been my favorite design software for awhile now. Now that its free is even better! 152
tmoeckli @tmoeckli.bsky.social · 11/11/2025New 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 tmoeckliPastelBio @pastelbio.bsky.social · 07/10/2025msBayesImpute: A Versatile Framework for Addressing Missing Values in Biomedical Mass Spectrometry Proteomics Data www.biorxiv.org/cont... --- #proteomics #prot-preprint 052
Reposted by tmoeckliJohn Lees @johnlees.bacpop.org · 15/08/2025My 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 examplesebi.ac.ukMathematical modelling for biologists - Modelling concepts in biological researchMathematical modelling for biologists - Modelling concepts in biological research 611357
Reposted by tmoeckliDeBerardinis Lab at UT Southwestern Medical Center @rjdlab.bsky.social · 30/07/20251/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.comPEX39 facilitates the peroxisomal import of PTS2-containing proteins - Nature Cell BiologyChen 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 tmoeckliPastelBio @pastelbio.bsky.social · 31/07/2025SynchroSep-MS: Parallel LC Separations for Multiplexed Proteomics pubs.acs.org/doi/10.... --- #proteomics #prot-paper 001
Reposted by tmoeckliWalter W. Chen, MD, PhD @walterwchen.bsky.social · 30/07/2025Our 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.comPEX39 facilitates the peroxisomal import of PTS2-containing proteins - Nature Cell BiologyChen 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 tmoeckliPRIDE Database @pride-ebi.bsky.social · 12/07/2025PXD051501 🚨 Pex39 facilitates peroxisomal import of PTS2 proteins – ScPex18 AP-MS data 🚨 New dataset alert! 🚨 001
Reposted by tmoeckliThe Binder Lab (DKFZ Heidelberg) @thebinderlab.bsky.social · 11/07/2025Great 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 tmoeckliNikolai Slavov @slavov-n.bsky.social · 30/06/2025Let'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 tmoeckliPastelBio @pastelbio.bsky.social · 18/06/2025A unified pan-cancer proteome atlas www.cell.com/cancer-... --- #proteomics #prot-paper 013
Reposted by tmoeckliAndy 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 #WeekendReadswired.comA New Law of Nature Attempts to Explain the Complexity of the UniverseA 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
Reposted by tmoeckliAndrew Leduc @andrewleduc.bsky.social · 30/05/2025More evidence for the role of protein degradation in significantly shaping the proteome of brain tissue! 085
Reposted by tmoeckliPeter Gleick @petergleick.bsky.social · 31/05/2025There 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. 449151557830
Reposted by tmoeckliAndrew Burgess @drandrewburgess.bsky.social · 27/05/2025Love today’s #xkcd comic on #MassSpec 🤣 419258
Reposted by tmoeckliPLOS Biology @plosbiology.org · 08/05/2025The 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/4m7hOYiplos.ioOld cytokine, new tricks: A refined model of interferon’s antiviral activityInterferon 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 tmoeckliThe Binder Lab (DKFZ Heidelberg) @thebinderlab.bsky.social · 09/05/2025Second 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 51415
Reposted by tmoeckliRafeeque 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 tmoeckliNikolai Slavov @slavov-n.bsky.social · 28/04/2025Applications 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 tmoeckliYasset Perez-Riverol @ypriverol.bsky.social · 25/04/2025ibaqpy: 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.comIbaqpy: A scalable Python package for baseline quantification in proteomics leveraging SDRF metadataIntensity-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 tmoeckliLindsay K Pino @lindsaykpino.com · 07/03/2025DDM (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 · 13/02/2025For 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 · 08/02/2025To 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.orgProteomics - Wikipedia 152
Reposted by tmoeckliGigaScience Journal @gigascience.bsky.social · 03/02/2025Looking 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 tmoeckliWHO @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 18481592490
tmoeckli @tmoeckli.bsky.social · 16/12/2024I 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 · 02/12/2024More and more DKFZ scientists are joining Bluesky! Here is a starter pack with the intention to connect us 💙 020
Reposted by tmoeckliAlexis Verger 🧬🧫🧪 @alexis-verger.cpesr.fr · 25/11/2024Look 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 tmoecklitmoeckli @tmoeckli.bsky.social · 19/11/2024Hello 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 · 19/11/2024Hello 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 tmoeckliOded Rechavi @odedrechavi.bsky.social · 19/11/2024Hope 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