IgLM: Infilling language modeling for antibody sequence design

Large language models generate functional protein sequences across diverse families

(2023) Ali Madani et al.   NATURE BIOTECHNOLOGY

Efficient evolution of human antibodies from general protein language models

(2023) Brian L. Hie et al.   NATURE BIOTECHNOLOGY

Evolutionary-scale prediction of atomic-level protein structure with a language model

(2023) Zeming Lin et al.   SCIENCE

Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

(2023) Jeffrey A. Ruffolo et al.   Nature Communications

BioPhi: A platform for antibody design, humanization, and humanness evaluation based on natural antibody repertoires and deep learning

(2022) David Prihoda et al.   mAbs

In silico proof of principle of machine learning-based antibody design at unconstrained scale

(2022) Rahmad Akbar et al.   mAbs

ProtGPT2 is a deep unsupervised language model for protein design

(2022) Noelia Ferruz et al.   Nature Communications

Antibody design using LSTM based deep generative model from phage display library for affinity maturation

(2021) Koichiro Saka et al.   Scientific Reports

Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences

(2021) Alexander Rives et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Protein design and variant prediction using autoregressive generative models

(2021) Jung-Eun Shin et al.   Nature Communications

Five computational developability guidelines for therapeutic antibody profiling

(2019) Matthew I. J. Raybould et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Thera-SAbDab: the Therapeutic Structural Antibody Database

(2019) Matthew I J Raybould et al.   NUCLEIC ACIDS RESEARCH

Clustering huge protein sequence sets in linear time

(2018) Martin Steinegger et al.   Nature Communications

Observed Antibody Space: A Resource for Data Mining Next-Generation Sequencing of Antibody Repertoires

(2018) Aleksandr Kovaltsuk et al.   JOURNAL OF IMMUNOLOGY

In vitro and in silico assessment of the developability of a designed monoclonal antibody library

(2018) Adriana-Michelle Wolf Pérez et al.   mAbs

Biophysical properties of the clinical-stage antibody landscape

(2017) Tushar Jain et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ANARCI: antigen receptor numbering and receptor classification

(2015) James Dunbar et al.   BIOINFORMATICS

The CamSol Method of Rational Design of Protein Mutants with Enhanced Solubility

(2015) Pietro Sormanni et al.   JOURNAL OF MOLECULAR BIOLOGY

Therapeutic antibodies: their mechanisms of action and the pathological findings they induce in toxicity studies

(2015) Masami Suzuki et al.   Journal of Toxicologic Pathology

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

(2014) B. E. Suzek et al.   BIOINFORMATICS

Prediction of Aggregation Prone Regions of Therapeutic Proteins

(2010) Naresh Chennamsetty et al.   JOURNAL OF PHYSICAL CHEMISTRY B

IMGT(R), the international ImMunoGeneTics information system(R)

(2008) M.-P. Lefranc et al.   NUCLEIC ACIDS RESEARCH