Dallago, Christian

ProtTrans: Toward Understanding the Language of Life Through Self-Supervised Learning

Elnaggar, A., Heinzinger, M., Dallago, C., Rehawi, G., Wang, Y., Jones, L., Gibbs, T., Feher, T., Angerer, C., Steinegger, M., et al. (2022) · IEEE Transactions on Pattern Analysis and Machine Intelligence

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 2,329

Nucleotide Transformer: building and evaluating robust foundation models for human genomics

Dalla-Torre, H., Gonzalez, L., Mendoza-Revilla, J., Lopez Carranza, N., Grzywaczewski, A. H., Oteri, F., Dallago, C., Trop, E., de Almeida, B. P., Sirelkhatim, H., et al. (2025) · Nature Methods

Machine Learning in BioinformaticsGenetic Associations and Epidemiology

Cited by 772

The Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

Lopez, M., Dalla-Torre, H., Gonzalez, L., Mendoza-Revilla, J., Carranza, N. L., Grzywaczewski, A., Oteri, F., Dallago, C., Trop, E., Sirelkhatim, H., et al. (2023) · Nature Methods

Machine Learning in BioinformaticsGenomics and Phylogenetic Studies

Cited by 680

The Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

Dalla-Torre, H., Gonzalez, L., Mendoza Revilla, J., Lopez Carranza, N., Henryk Grywaczewski, A., Oteri, F., Dallago, C., Trop, E., De Almeida, B. P., Sirelkhatim, H., et al. (2023) · Nature Methods

Machine Learning in BioinformaticsGenomics and Phylogenetic Studies

Cited by 680

Modeling the language of life – Deep Learning Protein Sequences

Heinzinger, M., Elnaggar, A., Wang, Y., Dallago, C., Nechaev, D., Matthes, F., & Rost, B. (2019) · BMC Bioinformatics

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 606

Modeling aspects of the language of life through transfer-learning protein sequences

Heinzinger, M., Elnaggar, A., Wang, Y., Dallago, C., Nechaev, D., Matthes, F., & Rost, B. (2019) · BMC Bioinformatics

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 606

Embeddings from protein language models predict conservation and variant effects

Marquet, C., Heinzinger, M., Olenyi, T., Dallago, C., Bernhofer, M., Erckert, K., Nechaev, D., & Rost, B. (2021) · Human Genetics

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 174

Embeddings from protein language models predict conservation and variant effects

Marquet, C., Heinzinger, M., Olenyi, T., Dallago, C., Bernhofer, M., Erckert, K., Nechaev, D., & Rost, B. (2021) · Human Genetics

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 174

Embeddings from protein language models predict conservation and variant effects

Marquet, C., Heinzinger, M., Olenyi, T., Dallago, C., Bernhofer, M., Erckert, K., & Rost, B. (2021) · Human Genetics

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 174

Light attention predicts protein location from the language of life

Stärk, H., Dallago, C., Heinzinger, M., & Rost, B. (2021) · Bioinformatics Advances

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 130

From sequence to function through structure: deep learning for protein design

Ferruz, N., Heinzinger, M., Akdel, M., Goncearenco, A., Naef, L., & Dallago, C. (2022) · Computational and Structural Biotechnology Journal

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 124

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

Zvyagin, M., Brace, A., Hippe, K., Deng, Y., Zhang, B., Bohorquez, C. O., Clyde, A., Kale, B., Perez-Rivera, D., Ma, H., et al. (2022) · The International Journal of High Performance Computing Applications

SARS-CoV-2 and COVID-19 ResearchGenomics and Phylogenetic Studies

Cited by 120

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

Zvyagin, M., Brace, A., Hippe, K., Deng, Y., Zhang, B., Bohorquez, C. O., Clyde, A., Kale, B., Perez-Rivera, D., Ma, H., et al. (2023) · The International Journal of High Performance Computing Applications

SARS-CoV-2 and COVID-19 ResearchGenomics and Phylogenetic Studies

Cited by 120

Protein embeddings and deep learning predict binding residues for various ligand classes

Littmann, M., Heinzinger, M., Dallago, C., Weissenow, K., & Rost, B. (2021) · Scientific Reports

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 120

Novel machine learning approaches revolutionize protein knowledge

Bordin, N., Dallago, C., Heinzinger, M., Kim, S., Littmann, M., Rauer, C., Steinegger, M., Rost, B., & Orengo, C. (2023) · Trends in Biochemical Sciences

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 72

GPU-accelerated homology search with MMseqs2

Kallenborn, F., Chacon, A., Hundt, C., Sirelkhatim, H., Didi, K., Cha, S., Dallago, C., Mirdita, M., Schmidt, B., & Steinegger, M. (2024) · Nature Methods

Protein Structure and DynamicsParallel Computing and Optimization Techniques

Cited by 72

LambdaPP: Fast and accessible protein-specific phenotype predictions

Olenyi, T., Marquet, C., Heinzinger, M., Kröger, B., Nikolova, T., Bernhofer, M., Sändig, P., Schütze, K., Littmann, M., Mirdita, M., et al. (2022) · Protein Science

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 18

TMVisDB: Annotation and 3D-visualization of transmembrane proteins

Olenyi, T., Marquet, C., Grekova, A., Houri, L., Heinzinger, M., Dallago, C., & Rost, B. (2024) · Journal of Molecular Biology

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 4

TMVisDB: Annotation and 3D-visualization of Transmembrane Proteins

Olenyi, T., Marquet, C., Grekova, A., Houri, L., Heinzinger, M., Dallago, C., & Rost, B. (2025) · Journal of Molecular Biology

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 4

Structural analysis of genomic and proteomic signatures reveal dynamic expression of intrinsically disordered regions in breast cancer

Zatorski, N., Sun, Y., Elmas, A., Dallago, C., Karl, T., Stein, D., Rost, B., Huang, K.-L., Walsh, M., & Schlessinger, A. (2024) · iScience

Protein Structure and DynamicsGene expression and cancer classification

Cited by 2

Structural Analysis of Genomic and Proteomic Signatures Reveal Dynamic Expression of Intrinsically Disordered Regions in Breast Cancer and Tissue

Zatorski, N., Sun, Y., Elmas, A., Dallago, C., Karl, T., Stein, D., Rost, B., Huang, K.-L., Walsh, M., & Schlessinger, A. (2023) · iScience

Protein Structure and DynamicsGene expression and cancer classification

Cited by 2