Author

Cátia Pesquita

University of LisbonORCID 0000-0002-1847-9393Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 3 Approach:statistical model· 3 Research Focus:benchmarking· 2 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Research Focus:drug response / drug discovery· 2 Research Focus:gene regulatory network inference· 2 Research Focus:database / resource· 1

Frequent Co-Authors

Alexander LairdiD· 3 shared Christophe BattailiD· 3 shared Fabio Massimo ZanzottoiD· 3 shared Javier A. AlfaroiD· 3 shared Ajitha RajaniD· 2 shared Aleksander PałkowskiiD· 2 shared David James HarrisoniD· 2 shared Håkan AxelsoniD· 2 shared

Activity by Year

2022-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersBioinformatics

Alexander LairdORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Expanding the definition of MHC Class I peptide binding promiscuity to support vaccine discovery across cancers with CARMEN

Michal Mateusz Waleron, Ashwin Adrian Kallor, Aleksander Pałkowski, Emilia Daghir‐Wojtkowiak, Piyush Borole, Mikołaj Kocikowski, Karol Połom, Fabio Marino, Beatriz Monterde, Michele Mastromattei, Davide Venditti, Mark D. Stares, Ashita Singh, Theodore Hupp, Christophe Battail, , Javier A. Alfaro

The paper expands the concept of MHC Class I peptide binding promiscuity to support vaccine discovery across cancers by analyzing data from 2,323 samples.

bioRxiv · May 8, 2025 · PreprintBioinformatics

Microenvironment of metastasis reveals key predictors of PD-1 blockade response in renal cell carcinoma

Florian Jeanneret, Pauline Bazelle, Sarah Schoch, Catherine Pillet, In Hwa Um, Assilah Bouzit, Bertrand Evrard, Evan Seffar, Frédéric Chalmel, Javier A. Alfaro, Cátia Pesquita, Fabio Massimo Zanzotto, Mark D. Stares, Stefan Nicholas Symeonides, Alexander Laird, , Christophe Battail

The paper identifies key predictors of PD-1 blockade response in renal cell carcinoma by analyzing the tumor microenvironment of metastatic sites and developing a predictive TID score.

bioRxiv · Jul 17, 2023 · PreprintBioinformatics

Supervised biomedical semantic similarity

Rita T. Sousa, Sara Silva, Cátia Pesquita

The paper introduces a supervised approach to tailor semantic similarity measures for specific biological perspectives, outperforming non-supervised methods in fitting different biological views.

IEEE Access · Jan 1, 2023Peer-reviewedBioinformatics

The immunopeptidome from a genomic perspective: Establishing immune-relevant regions for cancer vaccine design

Georges Bedran, Tongjie Wang, Dominika Pankanin, Kenneth Weke, Alexander Laird, Christophe Battail, Fabio Massimo Zanzotto, Cátia Pesquita, Håkan Axelson, Ajitha Rajan, David James Harrison, Aleksander Pałkowski, Maciej Pawlik, Maciej Parys, J. Robert O’Neill, , Javier A. Alfaro

The paper develops COD-dipp to map MHC Class I antigens from cancer studies and identifies immune-relevant genomic regions for vaccine design.

bioRxiv · Jan 13, 2022 · PreprintBioinformatics