Author

Arash Vahdat

Nvidia (United States)ORCID 0009-0005-9476-1306Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:protein structure· 3 Approach:deep learning· 2 Approach:experimental assay· 2 Organism:human· 2 Research Focus:protein design· 2 Assay:protein sequence· 2 Research Focus:protein structure prediction· 2 Approach:transformer / foundation model· 2

Frequent Co-Authors

Christian DallagoiD· 3 shared Karsten KreisiD· 2 shared Kieran DidiiD· 2 shared Martin SteineggeriD· 2 shared A. Katherine HatstatiD· 1 shared Alejandro ChacóniD· 1 shared Alena KhmelinskaiaiD· 1 shared Alex Reis· 1 shared

Activity by Year

2023-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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3 shared papersBioinformatics

Christian DallagoORCID

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Author profile →

4 papers

Recent·Most cited

Latent generative search unlocks de novo design of untapped biomolecular interactions at scale

Kieran Didi, Danny Reidenbach, Matthew Penner, Supriya Ravichandran, Marshall Case, Mike Nichols, Erik Swanson, Alex Reis, Maggie Prescott, Yue Hong Qian, Dongming Qian, J.S. Yang, Weiji Li, Le Li, Daichi Shonai, , Karsten Kreis

Reward-guided inference-time search over the Proteína-Complexa sequence-structure codesign model yields validated binders across 127 targets, kinases and a free carbohydrate, with codesigned sequences outperforming ProteinMPNN redesign.

bioRxiv · Sep 18, 2026 · PreprintBioengineering✦ In-depth digest

Efficient protein structure prediction fromcompact computers to datacenters withOpenFold-TRT

Kieran Didi, Prashant Sohani, Fabian Berressem, Alexander Nesterovskiy, Boris Fomitchev, Robert Ohannessian, Mohamed Elbalkini, Jonathan Cogan, Anthony B. Costa, Arash Vahdat, Felix Kallenborn, Bertil Schmidt, Milot Mirdita, Martin Steinegger, Christian Dallago, Alejandro Chacón

The paper accelerates protein structure prediction using OpenFold with TensorRT and MMseqs2-GPU, achieving 131x faster inference than AlphaFold2 on specific hardware.

bioRxiv · Mar 15, 2026 · PreprintBioinformatics

BoltzGen: Toward Universal Binder Design

Hannes Stark, Felix Faltings, MinGyu Choi, Yuxin Xie, Eunsu Hur, Timothy J. O’Donnell, Anton Bushuiev, Talip Uçar, Saro Passaro, Weian Mao, Mateo Reveiz, Roman Bushuiev, Tally Portnoi, Tomáš Pluskal, Josef Šivic, , Tommi Jaakkola

An all-atom diffusion model unifying biomolecular structure prediction and sequence-structure generation designs experimentally validated nanobodies, mini-proteins, and linear or cyclic peptides across 26 diverse targets.

bioRxiv · Nov 20, 2025 · PreprintBioengineering✦ In-depth digest

GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics.

Maxim Zvyagin, Alexander Brace, Kyle Hippe, Yuntian Deng, Bin Zhang, Cindy Orozco Bohorquez, Austin Clyde, Bharat Kale, Danilo Perez-Rivera, Heng Ma, Carla M. Mann, Michael Irvin, Defne Gorgun, Natalia Vassilieva, J. Gregory Pauloski, , Arvind Ramanathan

GenSLMs use large language models to analyze SARS-CoV-2 genomes, enabling rapid identification of variants of concern and providing insights into evolutionary dynamics.

The International Journal of High Performance Computing Applications · Oct 27, 2023Peer-reviewedBioinformatics