Author

Ivan Vrkic

École Polytechnique Fédérale de Lausanne

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Approach:large language model· 2 Assay:scRNA-seq· 2 Research Focus:cell type annotation· 1 Research Focus:cell-cell communication· 1 Approach:deep learning· 1 Research Focus:drug response / drug discovery· 1 Organism:human· 1

Frequent Co-Authors

David van DijkiD· 2 shared David Zhang· 2 shared Rahul M. DhodapkariD· 2 shared Syed Asad RizviiD· 2 shared Aakash M. PateliD· 1 shared Amin KarbasiiD· 1 shared Anna Zhong· 1 shared Antonio Henrique de Oliveira Fonseca· 1 shared

Activity by Year

2023-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersBioinformatics

David van DijkORCID

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2 papers

Recent·Most cited

Scaling Large Language Models for Next-Generation Single-Cell Analysis

Syed Asad Rizvi, Daniel Levine, Aakash M. Patel, Shiyang Zhang, Eric Wang, Curtis Jamison Perry, Ivan Vrkic, Nicole Mayerli Constante, Zirui Fu, Sizhuang He, David Zhang, Cerise Tang, Zhuoyang Lyu, Rayyan Y. Darji, Chang Li, , David van Dijk

This paper scales large language models for single-cell analysis, improving predictive and generative capabilities and enabling biological discovery through virtual screening.

bioRxiv · Apr 14, 2025 · PreprintBioinformatics

Cell2Sentence: Teaching Large Language Models the Language of Biology

Daniel M. Levine, Syed Asad Rizvi, Sacha Lévy, Nazreen Pallikkavaliyaveetil, David Zhang, Xingyu Chen, Sina Ghadermarzi, Ruiming Wu, Zihe Zheng, Ivan Vrkic, Anna Zhong, Daphne Raskin, Insu Han, Antonio Henrique de Oliveira Fonseca, Josue Ortega Caro, , David van Dijk

Cell2Sentence converts single-cell gene expression profiles into text-like cell sentences so standard large language models like GPT-2 can be fine-tuned for cell generation and cell-type annotation.

bioRxiv · Sep 11, 2023 · PreprintBioinformatics