Christian Dallago

发表

ProtTrans: Towards Cracking the Language of Life’s Code Through Self-Supervised Deep Learning and High Performance Computing

Burkhard Rost, Yu Wang, Christoph Angerer, 2020, bioRxiv.

Learned Embeddings from Deep Learning to Visualize and Predict Protein Sets

Kevin K. Yang, Amy X. Lu, B. Rost, 2021, Current protocols.

AlignmentViewer: Sequence Analysis of Large Protein Families

C. Sander, Yevgeniy Antipin, R. Sheridan, 2020, F1000Research.

CellMap visualizes protein-protein interactions and subcellular localization

B. Rost, M. Andrade-Navarro, Christian Dallago, 2017, F1000Research.

ProtTrans: Towards Cracking the Language of Lifes Code Through Self-Supervised Deep Learning and High Performance Computing.

B. Rost, Llion Jones, Tom Gibbs, 2021, IEEE transactions on pattern analysis and machine intelligence.

ProtTrans: Towards Cracking the Language of Life’s Code Through Self-Supervised Deep Learning and High Performance Computing

B. Rost, Llion Jones, Tom Gibbs, 2020, bioRxiv.

Clustering FunFams using sequence embeddings improves EC purity

B. Rost, C. Orengo, N. Bordin, 2021, bioRxiv.

PredictProtein - Predicting Protein Structure and Function for 29 Years

B. Rost, C. Sander, G. Vriend, 2021, Nucleic acids research.

Systematic modeling of SARS-CoV-2 protein structures

Bosco K. Ho, B. Rost, N. Bordin, 2020 .

PredictProtein - Predicting Protein Structure and Function for 29 Years

B. Rost, C. Sander, G. Vriend, 2021, bioRxiv.

Author-sourced capture of pathway knowledge in computable form using Biofactoid

Gary D Bader, Benjamin M. Gyori, John A. Bachman, 2021, eLife.

Capturing scientific knowledge in computable form

Gary D Bader, Benjamin M. Gyori, John A. Bachman, 2020, bioRxiv.

A roadmap for the functional annotation of protein families: a community perspective

Benjamin M. Gyori, Lucy J. Colwell, Ian K. Blaby, 2022, Database J. Biol. Databases Curation.

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

M. Heinzinger, Christian Dallago, A. Goncearenco, 2022, bioRxiv.

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

Rick L. Stevens, James J. Davis, Logan T. Ward, 2022, bioRxiv.

Embeddings from protein language models predict conservation and variant effects

B. Rost, M. Heinzinger, Christian Dallago, 2021, Human Genetics.

TMvisDB: resource for transmembrane protein 1 annotation and 3D visualization

M. Heinzinger, Christian Dallago, Michael Bernhofer, 2022 .

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

B. Rost, M. Heinzinger, Christian Dallago, 2021, Scientific Reports.

Embeddings from protein language models predict conservation and variant effects

Michael Heinzinger, Burkhard Rost, Michael Bernhofer, 2021, Human Genetics.

Light attention predicts protein location from the language of life

B. Rost, M. Heinzinger, Christian Dallago, 2021, bioRxiv.

Embeddings from deep learning transfer GO annotations beyond homology

Burkhard Rost, Michael Heinzinger, Christian Dallago, 2020, Scientific Reports.

Pathway Commons 2019 Update: integration, analysis and exploration of pathway data

Chris Sander, Gary D Bader, Ugur Dogrusoz, 2019, Nucleic Acids Res..

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

B. Rost, Ahmed Elnaggar, M. Heinzinger, 2019, BMC Bioinformatics.

Modeling the language of life – Deep Learning Protein Sequences

Burkhard Rost, Florian Matthes, Yu Wang, 2019, bioRxiv.

TMvisDB: resource for transmembrane protein annotation and 3D visualization

M. Heinzinger, Christian Dallago, Michael Bernhofer, 2023, bioRxiv.

End-to-end multitask learning, from protein language to protein features without alignments

Burkhard Rost, Michael Heinzinger, Ahmed Elnaggar, 2019, bioRxiv.

The EVcouplings Python framework for coevolutionary sequence analysis

Robert P. Sheridan, Debora S. Marks, Thomas A. Hopf, 2018, bioRxiv.

Pathway Commons: 2019 Update

Gary D. Bader, Gary D Bader, Ugur Dogrusoz, 2019, bioRxiv.

SARS‐CoV‐2 structural coverage map reveals viral protein assembly, mimicry, and hijacking mechanisms

Bosco K. Ho, B. Rost, S. O’Donoghue, 2021, Molecular systems biology.

SARS-CoV-2 structural coverage map reveals state changes that disrupt host immunity

Bosco K. Ho, B. Rost, S. O’Donoghue, 2020, bioRxiv.

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

Marcin J. Skwark, Christian Dallago, Christian Dallago, 2023, bioRxiv.

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

Llion Jones, Tom Gibbs, Ahmed Elnaggar, 2022, IEEE Transactions on Pattern Analysis and Machine Intelligence.

3D Infomax improves GNNs for Molecular Property Prediction

P. Lio’, Christian Dallago, Christian Dallago, 2021, ICML.

FLIP: Benchmark tasks in fitness landscape inference for proteins

Kevin K. Yang, Bruce J. Wittmann, Kadina E. Johnston, 2021, bioRxiv.

Novel machine learning approaches revolutionize protein knowledge

C. Orengo, N. Bordin, C. Rauer, 2022, Trends in biochemical sciences.

ProtTrans: Towards Cracking the Language of Life’s Code Through Self-Supervised Learning

Llion Jones, Tom Gibbs, Ahmed Elnaggar, 2021 .

A flexible search system for high-accuracy identification of biological entities and molecules

E. Demir, Christian Dallago, Jeff Wong, 2021, J. Open Source Softw..

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

Burkhard Rost, Yu Wang, Florian Matthes, 2019, BMC Bioinformatics.

Embeddings from protein language models predict conservation and variant effects

M. Heinzinger, Christian Dallago, Michael Bernhofer, 2021, Human Genetics.

Supporting online material for: Clustering FunFams using sequence embeddings improves EC purity

B. Rost, C. Orengo, M. Heinzinger, 2021 .

ProteomicsDB: toward a FAIR open-source resource for life-science research

B. Rost, Mathias Wilhelm, H. Krcmar, 2021, Nucleic Acids Res..

LambdaPP: Fast and accessible protein‐specific phenotype predictions

B. Rost, M. Heinzinger, Christian Dallago, 2022, bioRxiv.

ProtTrans: Towards Cracking the Language of Life’s Code Through Self-Supervised Learning

Llion Jones, Tom Gibbs, Ahmed Elnaggar, 2021 .

Supporting online material for: Protein embeddings and deep learning predict binding residues for various ligand classes

B. Rost, M. Heinzinger, Christian Dallago, 2021 .

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

Marcin J. Skwark, Christian Dallago, Karim Beguir, 2023, bioRxiv.