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Greifflab

@victorgreiff.bsky.social
2.8K followers 892 following 25 posts

Professor of Computational and Systems Immunology @UniOslo. Cofounder & Director of Computational Immunology @imprintlabs.bsky.social

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Reposted by Greifflab
Journal of Experimental Medicine @jem.org · 12/06/2026
IgD from atypical-like memory #Bcells and #plasmacells targets commensal and environmental antigens. From @rosertp.bsky.social, Bashour, Filipska, @victorgreiff.bsky.social, Cerutti et al rupress.org/jem/article/... 📘 From our Clinical #Immunology Collection 👉 rupress.org/jem/collecti... #FOCIS2026
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Journal of Experimental Medicine @jem.org · 04/05/2026
IgD from atypical-like memory #Bcells and #plasmacells targets commensal and environmental antigens. New study by @rosertp.bsky.social, Bashour, Filipska, and colleagues from the @victorgreiff.bsky.social & Cerutti labs at the Uni of Oslo & @researchmar.bsky.social: rupress.org/jem/article-...
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Rockefeller University Press @rupress.org · 27/04/2026
In @jem.org: @rosertp.bsky.social, Bashour, Filipska, et al (@victorgreiff.bsky.social & Cerutti labs, Uni Oslo & @researchmar.bsky.social) show IgD responses involve a heterogenous pop. of IgD class-switched memory #Bcells from epithelial areas of aerodigestive mucosa rupress.org/jem/article-...
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Journal of Experimental Medicine @jem.org · 27/04/2026
New study: @rosertp.bsky.social, Bashour, Filipska, et al (@victorgreiff.bsky.social & Cerutti labs, Uni Oslo & @researchmar.bsky.social) show IgD responses involve a heterogenous pop. of IgD class-switched memory #Bcells from epithelial areas of aerodigestive mucosa. rupress.org/jem/article-...
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Milena Pavlović @milenapavlovic.bsky.social · 24/02/2026
We are hiring a PhD student at the SCML group, University of Oslo! 🎓 When can clustering be trusted? This project will use simulations to probe the robustness of unsupervised ML, with applications in the life sciences. 🗓️Deadline: 24 March 📝To apply: www.jobbnorge.no/en/available...
jobbnorge.no
PhD Research Fellow in Trustworthy Machine Learning (296254) | University of Oslo
Job title: PhD Research Fellow in Trustworthy Machine Learning (296254), Employer: University of Oslo, Deadline: Tuesday, March 24, 2026
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Greifflab @victorgreiff.bsky.social · 15/11/2025
The AIRR-ML-2025 challenge is LIVE on @kaggle.com! We’re challenging the best in #MachineLearning & #DataScience to decode the immune system. 💰 $10,000 prize pool 📄 Co-author a NatureMethods paper
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Greifflab @victorgreiff.bsky.social · 22/10/2025
📢 We are announcing the Adaptive Immune Profiling Challenge 2025! Can you predict immune state labels from adaptive immune receptor repertoires? 💰 $10,000 prize pool! 🗓️ Launches Nov 5 on @kaggle.com More Info: uio-bmi.github.io/adaptive_imm...
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Greifflab @victorgreiff.bsky.social · 21/10/2025
Reminder that we are recruiting for a PhD Fellow. All details below. Application deadline: Oct 29th.
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Greifflab @victorgreiff.bsky.social · 28/09/2025
We’re recruiting a PhD Fellow in Computational Systems Immunology. Work on large-scale immune receptor datasets and develop computational models in close collaboration with experimental labs. Apply here: www.jobbnorge.no/en/available...
jobbnorge.no
PhD Fellowship in Computational Systems Immunology (286608) | University of Oslo
Job title: PhD Fellowship in Computational Systems Immunology (286608), Employer: University of Oslo, Deadline: Wednesday, October 15, 2025
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IMPRINT @imprintlabs.bsky.social · 18/09/2025
Models trained on harder antibody binding tasks learned deeper biological rules + generalized better. New NatureMachIntel paper by CTO @victorgreiff.bsky.social shows training on hard negatives (weak vs strong binders) boosts antibody ML generalization. Read the paper: doi.org/10.1038/s422...
doi.org
Training data composition determines machine learning generalization and biological rule discovery - Nature Machine Intelligence
Negative data composition critically shapes machine learning robustness in sequence-based biological tasks. Training data composition and its implications are investigated on biological rule discoveri...
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Amelie Stein @amelierocks.bsky.social · 18/09/2025
Deadline extended - last chance, second edition!
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IMPRINT @imprintlabs.bsky.social · 09/09/2025
Earlier this year, Imprint came out of stealth on the TED Mainstage to share our vision: What if the immune system holds the key to curing chronic diseases—and we just need the tools to read it? We’re building those tools. Our TED talk is now live 👉 go.ted.com/beckbrachman
go.ted.com
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Santiago Carmona 🧬 🖥️ 🧑🏾‍🔬 @carmonation.bsky.social · 22/08/2025
Identifying malignant cells in single-cell transcriptomics data – from first principles to computational solutions, framed around the hallmarks of cancer www.nature.com/articles/s42...
nature.com
Identification of malignant cells in single-cell transcriptomics data - Communications Biology
This review article discusses the challenges of identifying cancer cells in single-cell data, summarizing current computational solutions as well as underexplored features of malignancy.
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Typas Lab @typaslab.bsky.social · 12/08/2025
EMBL is back on hiring faculty! Check out the multiple open positions: 3 PIs- 2 in Heidelberg incl. our Molecular Systems Biology Unit, 1 in Grenoble 1 Head of Unit (Cell Biology & Biophysics, Heidelberg). Closing deadlines in Sep! +3 more positions to come out then, stay tuned... @embl.org
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IMPRINT @imprintlabs.bsky.social · 20/05/2025
📣Major thanks to @faylinphd.bsky.social at GEN News for this lovely piece on IMPRINT! It was a pleasure for our founders — @beckbrachman.bsky.social, @victorgreiff.bsky.social, and Raymond Alvarez — to speak about our mission and research, and being NYC's first FRO. @convergentresearch.bsky.social
genengnews.com
Imprint Labs Launches to Pioneer "Forensic Immunology" For Chronic Disease
Imprint has raised $15 million to decode the body's immune memory for understanding chronic diseases, such as long-COVID and psychiatric disorders.
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Greifflab @victorgreiff.bsky.social · 15/05/2025
Excited to co-found and help lead @imprintlabs.bsky.social —a focused effort to decode the immune system’s memory through cutting-edge computation and experimentation. Grateful to be on this journey with an exceptional team.
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Asbjørn Christophersen @immunebjorn.bsky.social · 08/05/2025
We have available a 3-year postdoc position in Bioinformatics in our lab at the University of Oslo focusing on the adaptive immune response in rheumatoid arthritis. Please see details here lds.easycruit.com/vacancy/3490...
lds.easycruit.com
Lovisenberg Diakonale Sykehus
Postdoctoral research fellowship in Bioinformatics and Immunology (3-year, full-time)
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Reposted by Greifflab
Immunity @cp-immunity.bsky.social · 07/05/2025
Online now: Somatic hypermutation unlocks antibody specificities beyond the primary repertoire
dlvr.it
Somatic hypermutation unlocks antibody specificities beyond the primary repertoire
Initial specificity is thought to be required for somatic hypermutation (SHM)-driven antibody evolution. Zuo, Gautam, et al. demonstrate that non-cognate B cells can enter germinal centers, undergo SHM, and acquire new antigen specificities, highlighting the capacity of antibodies to generate new recognition through SHM.
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IMPRINT @imprintlabs.bsky.social · 01/05/2025
Looking for a job in immunology or biotech research? ✨IMPRINT is #hiring! ✨ Join us to help revolutionize how we decode the body’s immune memory, uncover the causes of chronic diseases, and drive breakthroughs in autoimmunity and neuropsychiatric research. #BiotechJobs #Immunology #sciencejobs
imprint.org
Jobs — Imprint FRO
Join our team—current openings at Imprint
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Frank Noe @franknoe.bsky.social · 19/02/2025
The BioEmu-1 model and inference code are now public under MIT license!!! Please go ahead, play with it and let us know if there are issues. github.com/microsoft/bi...
github.com
GitHub - microsoft/bioemu: Inference code for scalable emulation of protein equilibrium ensembles with generative deep learning
Inference code for scalable emulation of protein equilibrium ensembles with generative deep learning - microsoft/bioemu
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Michael Baym @baym.lol · 17/01/2025
This paper has been a long time coming: We looked at the genomes of historical bacterial samples over a century to look for trends of antibiotic resistance genes, finding multiple instances of them in infections before the age of antibiotics, but an increase in both frequency and mobility after
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IMPRINT @imprintlabs.bsky.social · 09/01/2025
@timodonnell.bsky.social @giulioisac.bsky.social @jlimenitakis.bsky.social Beck Brachman Raymond Alvarez @victorgreiff.bsky.social Convergent Research
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Elisa Rosati Scalchi @elisarosix.bsky.social · 24/12/2024
1/10 Small pre-Christmas #bluetorial on the workshop held by the T-cell Receptor (TR) and Immunoglobulin (IG) Nomenclature Sub-Committee of @iuis-online.bsky.social on policies and procedures for TR/IG gene annotation and nomenclature #immunerepertoire #immunogenetics
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KruegerLab @kruegerlab.bsky.social · 05/01/2025
A good start into 2025: www.cell.com/cell-reports.... High-resolution mapping of cell cycle dynamics during steady-state T cell development and regeneration in vivo.
cell.com
High-resolution mapping of cell cycle dynamics during steady-state T cell development and regeneration in vivo
Kunze-Schumacher et al. have developed an experimental and computational framework to generate a quantitative high-resolution map of cell cycle phase durations during murine T cell development. This map provides insight into how cell cycle phases are adjusted between slow- and fast-dividing populations at steady state and in a preclinical model of thymus regeneration.
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Alán Aspuru-Guzik @aspuru.bsky.social · 31/12/2024
In a recent article, my group and I laid out some of the recommendations I have learned over the year about research. In 2025, our lab will double down on following our own advice. pubs.rsc.org/en/content/a...
pubs.rsc.org
Spiers Memorial Lecture: How to do impactful research in artificial intelligence for chemistry and materials science
Machine learning has been pervasively touching many fields of science. Chemistry and materials science are no exception. While machine learning has been making a great impact, it is still not reaching...
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David Shaywitz @dshaywitz.bsky.social · 20/12/2024
What an amazing read (h/t Jeff Flier) - esp @michaelmina.bsky.social which felt especially raw. #biosky #medsky www.harvardmagazine.com/2025/01/harv...
harvardmagazine.com
Harvard Professors Leaving for Private Sector Research | Harvard Magazine
Three distinguished scientists on leaving academia to advance biomedical research
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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 17/12/2024
A periodic reminder that biologically meaningful conformational changes do not have to be large While textbooks may indicate that relevant motions are large, even the original paper on alternating access makes it clear that atoms just need to move a bit to have an effect. doi.org/10.1038/2119... 🧬🧶
Figure from the paper describing the alternating access model and text that says that relevant motions can be exceedingly subtle
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Greifflab @victorgreiff.bsky.social · 15/12/2024
Extremely pleased to share our new work in collaboration with the @bruskolab.bsky.social lab, where we leveraged one of the largest TCRbeta sequencing datasets to identify T1D-associated TCR-based signatures. Paper link and 🧵 are below. Incredible work led by @puneet021192.bsky.social.
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Puneet Rawat, PhD @puneet021192.bsky.social · 14/12/2024
Happy to share our new collaborative work! 🚨 We analyzed 2250 TCR repertoires to uncover how HLA risk alleles shape immune autoreactivity in T1D. T1D-specific HLA-motifs were also validated in pancreatic lymph nodes (pLN) & spleen. 🧬🧵 #T1D #Immunology #TCR 1/9
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Pieter Meysman @pmeysman.bsky.social · 02/12/2024
Our massive effort to recontextualize #single #T-cell data is now out in Science Advances! We developed a new system, STEGO, to do a TCR-first analysis, and reanalyzed 12 studies and more than 500 000 individual T-cells. Supported by @cziscience.bsky.social ! doi.org/10.1126/scia...
doi.org
T cell receptor–centric perspective to multimodal single-cell data analysis
T cell receptor–centric perspective improves single-cell analysis.
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Helena Klara Jambor @helenajambor.bsky.social · 27/11/2024
Hey academics, what is happening with the preprint sites? 🧪 help.. @bioarxiv : reject (no biological data, no surprise) @arxiv_bio: 3 weeks turnaround! OSF preprint: 1 week, no approval yet 😮 - do they need help?
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Giulio Isacchini @giulioisac.bsky.social · 26/11/2024
Curious about generative modeling for T and B cell receptor repertoires and its role in understanding immune system diversity? Watch my talk here youtu.be/HVUYG-UmRH8?.... Thanks to the @airr-community.bsky.social and @victorgreiff.bsky.social for the opportunity to share our work!
youtu.be
AIRR-C Seminar Series, Sep 26, 2024 - Giulio Isacchini, Imprint Labs, USA
YouTube video by AIRR Community
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Greifflab @victorgreiff.bsky.social · 18/11/2024
We created one of the largest antibody bottom-up proteomics datasets to query the impact of experimental and computational parameters on the reconstruction of antibody sequences. www.biorxiv.org/content/10.1... Brilliant work by @mchernigovskaya.bsky.social, Khang Le Quy and Igor Snapkow.
biorxiv.org
Systematic benchmarking of mass spectrometry-based antibody sequencing reveals methodological biases
The circulating antibody repertoire is crucial for immune protection, holding significant immunological and biotechnological value. While bottom-up mass spectrometry (MS) is the most widely used prote...
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Eva Smorodina @evasmorodina.bsky.social · 18/11/2024
My last paper with Shuguang Zhang is finally published! We explored QTY (L → Q, I/V → T, F → Y) mutagenesis to make hydrophobic transmembrane proteins more water-soluble. It shows that simple methods, without thousands of GPUs, can be useful and fulfill their tasks. www.nature.com/articles/s41...
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AIRR-Community @airr-community.bsky.social · 20/12/2023
⏰ www.antibodysociety.org/the-airr-com... Short talk abstract submission for AIRR Community meeting is January 18! Link to abstract submission form:  docs.google.com/forms/d/e/1F...
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bioRxiv Biophysics @biorxiv-biophys.bsky.social · 20/11/2023
Protein Stability Prediction by Fine-tuning a Protein Language Model on a Mega-scale Dataset www.biorxiv.org/content/10.1101/202…
biorxiv.org
Protein Stability Prediction by Fine-tuning a Protein Language Model on a Mega-scale Dataset https://www.biorxiv.org/content/10.1101/2023.11.19.567747v1
The stability of a protein is crucial to its utility in industrial applications. While engineering c
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Greifflab @victorgreiff.bsky.social · 06/11/2023
Curious about what a blood sample can reveal about humoral immunity? Our latest work combined sequencing methods and mass spectrometry to explore BCR and antibody repertoires and assess their synergistic potential. www.biorxiv.org/content/10.1...
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Corey Watson @cdubsig.bsky.social · 04/11/2023
If you're interested in listening to some geeks yammer on about the past, present and future of immunoglobulin and T cell receptor genomics and germline databases: www.podbean.com/ew/pb-nvt5d-...
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AIRR-Community @airr-community.bsky.social · 05/11/2023
The updated AIRR-C Governance awaits AIRR-C member vote by November 10th! Version 22 of the AIRR-C Governance doc has passed internal review and the AIRR-C feedback process. It is now ready for formal ratification. All infos and link to vote are here: www.antibodysociety.org/airr-communi...
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Greifflab @victorgreiff.bsky.social · 31/10/2023
Really excited that our work on the plasticity of antibody developability is out www.biorxiv.org/content/10.1.... A fantastic collaborative effort led by Habib Bashour, @evasmorodina.bsky.social, Matteo Pariset, and @jahnzhong.bsky.social. All details are in the thread below.
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Greifflab @victorgreiff.bsky.social · 24/10/2023
Machine learning on immune receptors/repertoires is an exponentially expanding field, but labeled data to benchmark ML methods are missing. We address this need with our new simulation framework LIgO. www.biorxiv.org/content/10.1... Led by @mchernigovskaya.bsky.social and Milena Pavlović.
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fanofactor 🧬💻 @fanofactor.bsky.social · 04/10/2023
Inferring B cell phylogenies from paired heavy and light chain BCR sequences with Dowser www.biorxiv.org/content/10.1...
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AIRR-Community @airr-community.bsky.social · 21/10/2023
AIRR-C/TAbS Webinar on Nov 7th on "Quality Control Pipelines for T cell and B cell AIRR-seq" by Encarnita Mariotti-Ferrandiz and Nina Luning Prak. It's free and will be recorded! Register here: webinars-antibodysociety.org/store/semina...
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Marc Somssich @somssich.bsky.social · 15/09/2023
"Community-developed checklists for publishing images and image analyses" Very important resource for #Microscopy coming from Christopher Schmied, Christian Tischer & Helena Klara Jambor et al. 👍 I assume this was edited by @ritastrack.bsky.social? www.nature.com/articles/s41...
nature.com
Community-developed checklists for publishing images and image analyses - Nature Methods
Community-developed checklists offer best-practice guidance for biologists preparing light microscopy images and describing image analyses for publications.
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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 09/10/2023
This post is long but informative (even if mostly written before the newest paper): The 8 Fallacies of Assembly Theory hectorzenil.medium.com/test-8f0be54...
hectorzenil.medium.com
The 8 Fallacies of Assembly Theory
In response to the alleged misunderstandings evident in our exposure of the many serious issues undermining the foundations and methods of…
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Greifflab @victorgreiff.bsky.social · 04/10/2023
New work from my lab on "Weakly supervised identification and generation of adaptive immune receptor sequences associated with immune disease status" led by @highvariance.bsky.social and Philippe Robert. Great collaboration with G.K. Sandve and L.M. Sollid. www.biorxiv.org/content/10.1...
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Richard Sever @richardsever.bsky.social · 04/10/2023
The past, present and future of science publishing. New article from me on a history not always told correctly, the reality of the journal world, and choices for the future doi.org/10.1371/jour...
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Tuuli Lappalainen @tuuliel.bsky.social · 02/10/2023
I'm dreaming of AI tools not just for finding interpretable biological insights, but for all the **** we do instead of the actual science, mentoring and teaching. Can someone please steal and implement some of these ideas:
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