Author

Zahra McVey

Novo Nordisk (United Kingdom)ORCID 0000-0002-9936-1564Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:transformer / foundation model· 3 Approach:deep learning· 2 Research Focus:differential expression· 2 Organism:human· 2 Assay:Ribo-seq· 2 Research Focus:gene regulatory network inference· 1 Assay:protein sequence· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

Gerben MenschaertiD· 3 shared Jim ClauwaertiD· 3 shared Ramneek GuptaiD· 3 shared Alexey I. NesvizhskiiiD· 1 shared Ian YannuzziiD· 1 shared John R. PrensneriD· 1 shared Venkatesha BasruriD· 1 shared

Activity by Year

2023-2025 · peak 2/yr

Co-Author Collaboration Network

7 top collaborators · 21 mutual co-author links

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3 shared papersBioinformatics

Gerben MenschaertORCID

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3 papers

Recent·Most cited

Deep learning to decode sites of RNA translation in normal and cancerous tissues

Jim Clauwaert, Zahra McVey, Ramneek Gupta, Ian Yannuzzi, Venkatesha Basrur, Alexey I. Nesvizhskii, Gerben Menschaert, John R. Prensner

This paper introduces RiboTIE, a transformer model for mapping RNA translation, showing high precision and sensitivity in normal and cancerous tissues.

Nature Communications · Feb 2, 2025Peer-reviewedBioinformatics

RIBO-former: leveraging ribosome profiling information to improve the detection of translated open reading frames.

Jim Clauwaert, Zahra McVey, Ramneek Gupta, Gerben Menschaert

RIBO-former improves translated open reading frame detection using ribosome profiling data and transformer models, outperforming existing methods and identifying non-canonical ORFs and polycistronic mRNAs.

bioRxiv · Jun 20, 2023 · PreprintBioinformatics

TIS transformer: Remapping the human proteome using deep learning

Jim Clauwaert, Zahra McVey, Ramneek Gupta, Gerben Menschaert

The paper introduces TIS Transformer, a deep learning model that improves the mapping of translation initiation sites in the human proteome by analyzing transcript sequences.

NAR Genomics and Bioinformatics · Jan 10, 2023Peer-reviewedBioinformatics