HUPO-HIPP

After a long journey, we’re thrilled to share our new preprint! 🎉 🔬 Prosit-PTM leveraging ProteomeTools-PTM and novel data augmentation to enable zero-shot prediction 👉 Boosts PTM site localization, histone peptide IDs, and even modifications on HLA peptides #AI #Proteomics

We report a new role for HIF in the regulation of endogenous retroviruses! It was a big collaborative effort to explore the HIF-mediated transcription, expression, and HLA presentation of ERVs in kidney cancer and leveraging them for immunotherapy cell.com/cell/fulltext/…

Tim Griffin, @nesvilab and Bing Zhang, will have a panel discussion on 'MS-Based #Immunopeptidomics: Challenges and Opportunities in Immuno-Oncology Research' at the #USHUPO2025 conference on 23rd Feb. #1-1740357000-1740361500-Evening-Workshops" target="_blank" rel="nofollow noopener">ushupoconference.org/agenda#1-17403…

Happy to share our immunopeptidomics pipeline using four search engine with follow-up rescoring to boost confident IDs. Also applied to timsTOF SCP data! @ImpensLab @compomics Preprint: biorxiv.org/content/10.110…

Immunopeptidomics (impep) friends, have you ever done impep to ID peptides after soluble protein delivery to phagocytes to look at peptides generated by XP?

🎇 🎆 Let's celebrate 2024's end with a bang and belated Christmas present 🎄🎁 Excited to share the upload of our MAETi workflow enabling MS-based MHC class I immunopeptidomics using as few as 25,000 cells as initial input - now on bioRxiv: biorxiv.org/content/10.110… (1/6) 🧵

🎺💛I'm delighted to share our latest paper: Machine learning-enhanced immunopeptidomics applied to T-cell epitope discovery for COVID-19 vaccines. Great collaborative effort. Congrats to all 👏 nature.com/articles/s4146… @juhussin @mlaval6 @YaleIBIO @HippHupo @hupo_org

Delighted to share our paper on the NeoDisc pipeline, developed by the super-talented @FlorianHuber_. NeoDisc is an ‘end-to-end’ clinical antigen discovery pipeline, integrating genomics, transcriptomics and immunopeptidomics nature.com/articles/s4158… @HippHupo

🧬🚨New in @TrendsGenetics: Our review on microproteins in cancer! From identification to clinical potential, discover how these tiny proteins are reshaping cancer biology here: authors.elsevier.com/sd/article/S01… @s_heesch @johnprensner #microproteins #CancerResearch

Check out our latest paper by @Megan_Ford_2021 on Selective HLA Class II Allele-Restricted Activation of Atabecestat Metabolite-Specific Human T-Cells published in @ChemResTox 🧫🥼🔬 pubs.acs.org/doi/10.1021/ac…

Our #FragPipe-Analyst manuscript is out! pubs.acs.org/doi/10.1021/ac…. Load FragPipe's TMT/ LFQ/DIA quant tables (peptide or protein quant) and get QC, Limma, PCA, volcano plots, heatmaps, do GO/pathway enrichment analysis, all with just a few clicks! Tutorials:fragpipe-analyst-doc.nesvilab.org

📣 📣📣 Interested in HLA-E, T cell response, and immunopeptidomics? Our mini-review is out: frontiersin.org/journals/immun… @hupo_org @HippHupo @asmsnews @YaleIBIO @Yale

How is it no one yet twitted how amazing was the @HippHupo immunopeptidomics summer school this week in Montreal? Well organized, great talks and posters, engaged audience. I was fortunate they invited me to talk about our work and do #FragPipe tutorial. hupo.org/Human-Immuno-P….

We're honored to sponsor the 3rd HUPO-HIPP Summer School in vibrant Montréal, QC! 🌟 Our team will showcase PEAKS 12 & our cutting-edge DeepImmu service. Meet our experts & discover how BSI can enhance your research. Thank you for organizing @HippHupo! bioinfor.com/hupo-hipp-2024/

The step-by-step protocol covers sample prep, LC-MS configuration for Thunder-DDA-PASEF in timsTOF Pro, and processing in PEAKS + MS2Rescore boost. This is our SOP at @TenzerLab And the Immunopeptidomics Platform at @HITRONMainz @DKFZ in collaboration with @compomics lab @ugent

Since many people were interested in implementing our workflow for deep coverage #immunopeptidomics, we wrote a comprehensive and detailed protocol. Available now via @researchsquare researchsquare.com/article/rs-484… #proteomics

Very nice to see the result of my internship at @genentech out in @biorxivpreprint! If you’re intersted in diaPASEF and immunopeptidomics, check this out: biorxiv.org/content/10.110…. Big thanks to @susanklaeger and @CMichaelRose for introducing me to immunopeptidomics!

Now online - check out this video from @StrubeStiftung where @JulianeWalz introduces our new phase I #ClinicalTrial for an #immunopeptidomics-based #peptide #vaccine for #patients with #AML. youtube.com/watch?v=tFuY4X…

FASTMAP—a flexible and scalable immunopeptidomics pipeline for HLA- and antigen-specific T-cell epitope mapping based on artificial antigen-presenting cells dlvr.it/T6ZM9X #FrontImmunol

Jonathan Krieger and George Rosenberger discuss the role of #machinelearning in #immunopeptidomics – and beyond bit.ly/4awdtrB