Author

Nona Naderi

SIB Swiss Institute of BioinformaticsORCID 0000-0002-1272-7640Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 3

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 3 Approach:statistical model· 2 Research Focus:database / resource· 1 Approach:deep learning· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Douglas TeodoroiD· 3 shared Alban BornetiD· 1 shared Anthony YazdaniiD· 1 shared Boya ZhangiD· 1 shared Cecilia N. ArighiiD· 1 shared Christophe Gaudet-BlavignaciD· 1 shared David Vicente AlvareziD· 1 shared Elham KashaniiD· 1 shared

Activity by Year

2020-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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3 shared papersBioinformatics

Douglas TeodoroORCID

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Author profile →

3 papers

Recent·Most cited

BioWiC: An Evaluation Benchmark for Biomedical Concept Representation

Hossein Rouhizadeh, Irina Nikishina, Anthony Yazdani, Alban Bornet, Boya Zhang, Julien Ehrsam, Christophe Gaudet-Blavignac, Nona Naderi, Douglas Teodoro

The paper introduces BioWiC, a benchmark to evaluate how well language models represent biomedical concepts in context, and establishes baselines using various large language models.

bioRxiv · Nov 8, 2023 · PreprintBioinformatics

Information retrieval in an infodemic: the case of COVID-19 publications

Douglas Teodoro, Sohrab Ferdowsi, Nikolay Borissov, Elham Kashani, David Vicente Alvarez, Jenny Copara, Racha Gouareb, Nona Naderi, Poorya Amini

The paper presents an information retrieval methodology for finding relevant COVID-19 publications in an infodemic, achieving competitive results in the TREC-COVID challenge.

Journal of Medical Internet Research · Aug 5, 2021Peer-reviewedBioinformatics

UPCLASS: a Deep Learning-based Classifier for UniProtKB Entry Publications

Douglas Teodoro, Julien Knafou, Nona Naderi, Emilie Pasche, Julien Gobeill, Cecilia N. Arighi, Patrick Ruch

UPCLASS uses a CNN to classify UniProtKB publications into categories based on protein annotations, achieving higher accuracy than logistic regression and SVM.

Database · Jan 1, 2020Peer-reviewedBioinformatics