Hubert Hackl
@hubert_hackl
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Group Leader in Computational Biology and Immuno-Oncology
Innsbruck, Austria
Joined January 2020
TIRTL-seq: Deep, quantitative, and affordable paired TCR repertoire sequencing
biorxiv.org
α/β T cells are key players in adaptive immunity. The specificity of T cells is determined by the sequences of the hypervariable T cell receptor (TCR) α and β chains. Although bulk TCR sequencing...
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Epigenetic reactivation of transposable elements induces tumor-enriched antigens in glioblastoma but also some in proliferating nontumor cells @NatureGenet @twang5 @AlbertHKimMDPhD @Nakul2234 @leung_holden
https://t.co/FI92Wvg6vO
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130 tumors from 94 patients! Mapping spatial organization and genetic cell-state regulators to target immune evasion in ovarian cancer
nature.com
Nature Immunology - Here the authors provide a resource for ovarian cancer combining spatial transcriptomics, genomics, CRISPR Perturb-seq screens and in silico methods to focus on T cells and...
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Excited to share that our BamQuery (BQ) article has been published in @GenomeBiology! Congrats @MariaVPetite from @IRIC_umontreal for the amazing job 👏! ➡️ https://t.co/T1VXyuUiRT BQ helps prioritize #tumor antigens & design #cancer #vaccines. How is it useful? A thread🧵:
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Excited to share STAPLER, a language model to predict TCR – pMHC reactivity that outperforms prior models. And for ML aficionados: Description of a new data leakage problem inherent to a common negative data generation strategy. https://t.co/dsLeYJoT7v 🧵👇
biorxiv.org
The prediction of peptide-MHC (pMHC) recognition by αβ T-cell receptors (TCRs) remains a major biomedical challenge. Here, we develop STAPLER (Shared TCR And Peptide Language bidirectional Encoder...
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Today we report that an engineered skin bacterium, swabbed gently on the head of a mouse, can unleash a potent immune response against a distant tumor. @yerinchen led the charge w/ help from @DjenetBousbaine, @VeinbachsA, @BelkaidLab. @ScienceMagazine 1/26 https://t.co/bgW3C7CJgh
science.org
A system to express tumor antigens in the skin commensal bacterium Staphylococcus epidermidis elicits T cells that treat local and systemic tumors.
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42: the answer to everything? We are so excited to share our study led by the fantastic @leiendeckerlu & @fh_fingolfin, which identified HPV42 as an oncogenic #virus that causes skin #cancer & a germ cell-like program conserved in all HPV+ cancers. 🧵👇/1 https://t.co/Vu6PbqBWDk
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Nature research paper: Neoantigen quality predicts immunoediting in survivors of pancreatic cancer
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Pan-cancer single-cell landscape of tumor-infiltrating T cells
science.org
Single-cell RNA sequencing of cancer-associated T cells elucidates links between immune cell types and tumor characteristics.
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A HLA peptidomic analysis in Nature identifies recurrent intracellular bacteria-derived peptides presented on HLA-I and HLA-II molecules in melanoma tumours, revealing how bacteria can modulate immune functions and responses to cancer therapies. https://t.co/axQs7levJe
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Prediction of neo-epitope immunogenicity reveals TCR recognition determinants and provides insight into immunoediting: Cell Reports Medicine
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Just published #OnlineFirst: An empirical antigen selection method identifies #neoantigens that either elicit broad anti-tumor T cell responses or drive tumor growth. @jessaflecht @GenoceaBio
https://t.co/Yjr1wy8ILx
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New Article now online: Meta-analysis of tumor- and T cell-intrinsic mechanisms of sensitization to checkpoint inhibition
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The Ruppin lab ( https://t.co/xuZSOAmniU) has a few postdoc openings summer 2021. We study cancer genomics, metabolism and immunotherapy, collaborating with experimental and clinical labs in the NCI and beyond to develop new precision oncology treatment approaches. Pls RT! :)
ccr.cancer.gov
My research is focused on multi-disciplinary algorithmic computationally driven analysis of large-scale biomedical omics and clinical data, with an emphasis on AI and machine / deep learning approa...
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Remember the last patient you lost due to postoperative liver failure? We created an App (Type: TELLAPRIABLI) together with 37binary based on data of >12000pts that allows preoperative risk assessment of postoperative MORTALITY! @Seanpcleary @hubert_hackl @j_starlinger @hpb_so
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Anti-tumour immunity induces aberrant peptide presentation in melanoma | Nature. Our paper just published in Nature -A wonderful collaboration with Reuven Agami, Johanna Olweus, Daniel Peeper, Stern Ginossar Tamar Geiger. Congratulation to the whole team!
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Happy to share our map of #CRC response to immunotherapy incl. #KEYNOTE177 samples. Huge effort by @RedaKeddar @AmeAchaSag Michele, Lucia (not on Twitter) @JoSpencerLab clinical colleagues @uclcancer fabulous STPs @TheCrick and many more. Summary 👇 1/8
biorxiv.org
To dissect the determinants of the heterogeneous response of colorectal cancer (CRC) to immune checkpoint blockade, we profile tumour and immune infiltrates of 721 cancer regions from 29 patients...
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A systematic study of predictors of irAE risk in anti-PD1/PDL1 treatment across 26 tumor types. Tweetorial summary 1/n
nature.com
Nature Communications - Immunotherapy, the reactivation of the immune system to recognize cancer cells, can be accompanied by severe adverse effects. Here, the authors use pharmacovigilance and...
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Differentiation of transplanted haematopoietic stem cells tracked by single-cell transcriptomic analysis | Nature Cell Biology
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#Scirpy: A Scanpy extension for analyzing #singlecell #TCR sequencing data in #python
https://t.co/Hd2wvGIibP
@grsturm @imed_tweets
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