Victor Greiff

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 22

Top Topics

Hopfield Networks

Experimental Data

Top Venues

Nat. Mac. Intell.

Briefings Bioinform.

Publications

Mai Ha Vu, Philippe A. Robert, Rahmad Akbar, Bartlomiej Swiatczak, Geir Kjetil Sandve, Dag Trygve Truslew Haug, Victor Greiff
Linguistics-based formalization of the antibody language as a basis for antibody language models. Nat. Comput. Sci. 4 (6) (2024)
Milena Pavlovic, Ghadi S. Al Hajj, Chakravarthi Kanduri, Johan Pensar, Mollie Wood, Ludvig Magne Sollid, Victor Greiff, Geir Kjetil Sandve
Improving generalization of machine learning-identified biomarkers using causal modelling with examples from immune receptor diagnostics. Nat. Mac. Intell. 6 (1) (2024)
Mai Ha Vu, Rahmad Akbar, Philippe A. Robert, Bartlomiej Swiatczak, Geir Kjetil Sandve, Victor Greiff, Dag Trygve Truslew Haug
Linguistically inspired roadmap for building biologically reliable protein language models. Nat. Mac. Intell. 5 (5) (2023)
Philippe A. Robert, Victor Greiff
Bridging the neutralization gap for unseen antibodies. Nat. Mac. Intell. 5 (1) (2023)
Leonard Wossnig, Norbert Furtmann, Andrew Buchanan, Sandeep Kumar, Victor Greiff
Best practices for machine learning in antibody discovery and development. CoRR (2023)
Shiva Dahal-Koirala, Gabriel Balaban, Ralf Stefan Neumann, Lonneke Scheffer, Knut Erik Aslaksen Lundin, Victor Greiff, Ludvig Magne Sollid, Shuo-Wang Qiao, Geir Kjetil Sandve
TCRpower: quantifying the detection power of T-cell receptor sequencing with a novel computational pipeline calibrated by spike-in sequences. Briefings Bioinform. 23 (2) (2022)
Torbjørn Rognes, Lonneke Scheffer, Victor Greiff, Geir Kjetil Sandve
CompAIRR: ultra-fast comparison of adaptive immune receptor repertoires by exact and approximate sequence matching. Bioinform. 38 (17) (2022)
Mai Ha Vu, Philippe A. Robert, Rahmad Akbar, Bartlomiej Swiatczak, Geir Kjetil Sandve, Dag Trygve Truslew Haug, Victor Greiff
ImmunoLingo: Linguistics-based formalization of the antibody language. CoRR (2022)
Wiktoria Wilman, Sonia Wróbel, Weronika Bielska, Piotr Deszynski, Pawel Dudzic, Igor Jaszczyszyn, Jedrzej Kaniewski, Jakub Mlokosiewicz, Anahita Rouyan, Tadeusz Satlawa, Sandeep Kumar, Victor Greiff, Konrad Krawczyk
Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery. Briefings Bioinform. 23 (4) (2022)
Geir Kjetil Sandve, Victor Greiff
Access to ground truth at unconstrained size makes simulated data as indispensable as experimental data for bioinformatics methods development and benchmarking. Bioinform. 38 (21) (2022)
Milena Pavlovic, Ghadi S. Al Hajj, Johan Pensar, Mollie Wood, Ludvig M. Sollid, Victor Greiff, Geir Kjetil Sandve
Improving generalization of machine learning-identified biomarkers with causal modeling: an investigation into immune receptor diagnostics. CoRR (2022)
Philippe A. Robert, Rahmad Akbar, Robert Frank, Milena Pavlovic, Michael Widrich, Igor Snapkov, Andrei Slabodkin, Maria Chernigovskaya, Lonneke Scheffer, Eva Smorodina, Puneet Rawat, Brij Bhushan Mehta, Mai Ha Vu, Ingvild Frøberg Mathisen, Aurél Prósz, Krzysztof Abram, Alex Olar, Enkelejda Miho, Dag Trygve Truslew Haug, Fridtjof Lund-Johansen, Sepp Hochreiter, Ingrid Hobæk Haff, Günter Klambauer, Geir Kjetil Sandve, Victor Greiff
Unconstrained generation of synthetic antibody-antigen structures to guide machine learning methodology for antibody specificity prediction. Nat. Comput. Sci. 2 (12) (2022)
Asif Khan, Alexander Imani Cowen-Rivers, Derrick-Goh-Xin Deik, Antoine Grosnit, Kamil Dreczkowski, Philippe A. Robert, Victor Greiff, Rasul Tutunov, Dany Bou-Ammar, Jun Wang, Haitham Bou-Ammar
AntBO: Towards Real-World Automated Antibody Design with Combinatorial Bayesian Optimisation. CoRR (2022)
Mai Ha Vu, Rahmad Akbar, Philippe A. Robert, Bartlomiej Swiatczak, Victor Greiff, Geir Kjetil Sandve, Dag Trygve Truslew Haug
Advancing protein language models with linguistics: a roadmap for improved interpretability. CoRR (2022)
Milena Pavlovic, Lonneke Scheffer, Keshav Motwani, Chakravarthi Kanduri, Radmila Kompova, Nikolay Vazov, Knut Waagan, Fabian L. M. Bernal, Alexandre Almeida Costa, Brian Corrie, Rahmad Akbar, Ghadi S. Al Hajj, Gabriel Balaban, Todd M. Brusko, Maria Chernigovskaya, Scott Christley, Lindsay G. Cowell, Robert Frank, Ivar Grytten, Sveinung Gundersen, Ingrid Hobæk Haff, Eivind Hovig, Ping-Han Hsieh, Günter Klambauer, Marieke L. Kuijjer, Christin Lund-Andersen, Antonio Martini, Thomas Minotto, Johan Pensar, Knut D. Rand, Enrico Riccardi, Philippe A. Robert, Artur Rocha, Andrei Slabodkin, Igor Snapkov, Ludvig M. Sollid, Dmytro Titov, Cédric R. Weber, Michael Widrich, Gur Yaari, Victor Greiff, Geir Kjetil Sandve
The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires. Nat. Mach. Intell. 3 (11) (2021)
Philippe A. Robert, Heike Kunze-Schumacher, Victor Greiff, Andreas Krueger
Modeling the Dynamics of T-Cell Development in the Thymus. Entropy 23 (4) (2021)
Michael Widrich, Bernhard Schäfl, Milena Pavlovic, Hubert Ramsauer, Lukas Gruber, Markus Holzleitner, Johannes Brandstetter, Geir Kjetil Sandve, Victor Greiff, Sepp Hochreiter, Günter Klambauer
Modern Hopfield Networks and Attention for Immune Repertoire Classification. NeurIPS (2020)
Erand Smakaj, Lmar Babrak, Mats Ohlin, Mikhail Shugay, Bryan S. Briney, Deniz Tosoni, Christopher Galli, Vendi Grobelsek, Igor D'Angelo, Branden Olson, Sai T. Reddy, Victor Greiff, Johannes Trück, Susanna Marquez, William D. Lees, Enkelejda Miho
Benchmarking immunoinformatic tools for the analysis of antibody repertoire sequences. Bioinform. 36 (6) (2020)
Cédric R. Weber, Rahmad Akbar, Alexander Yermanos, Milena Pavlovic, Igor Snapkov, Geir Kjetil Sandve, Sai T. Reddy, Victor Greiff
immuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarking. Bioinform. 36 (11) (2020)
Hubert Ramsauer, Bernhard Schäfl, Johannes Lehner, Philipp Seidl, Michael Widrich, Lukas Gruber, Markus Holzleitner, Milena Pavlovic, Geir Kjetil Sandve, Victor Greiff, David P. Kreil, Michael Kopp, Günter Klambauer, Johannes Brandstetter, Sepp Hochreiter
Hopfield Networks is All You Need. CoRR (2020)
Michael Widrich, Bernhard Schäfl, Hubert Ramsauer, Milena Pavlovic, Lukas Gruber, Markus Holzleitner, Johannes Brandstetter, Geir Kjetil Sandve, Victor Greiff, Sepp Hochreiter, Günter Klambauer
Modern Hopfield Networks and Attention for Immune Repertoire Classification. CoRR (2020)
Alexander Yermanos, Victor Greiff, Nike Julia Krautler, Ulrike Menzel, Andreas Dounas, Enkelejda Miho, Annette Oxenius, Tanja Stadler, Sai T. Reddy
Comparison of methods for phylogenetic B-cell lineage inference using time-resolved antibody repertoire simulations (AbSim). Bioinform. 33 (24) (2017)