ArticlePLoS computational biology2016
Maximum-Entropy Models of Sequenced Immune Repertoires Predict Antigen-Antibody Affinity.
Article in PLoS computational biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Antibody Affinity Maturation by Computational Design.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Bio-Inspired Mamba for Antibody-Antigen Interaction Prediction.Biomolecules · 2025Article
- The quality and complexity of pairwise maximum entropy models for large cortical populations.PLoS computational biology · 2024Article
- High allelic diversity in Arabidopsis NLRs is associated with distinct genomic features.EMBO reports · 2024Article
- Inference of annealed protein fitness landscapes with AnnealDCA.PLoS computational biology · 2024Article
- High intraspecies allelic diversity inbioRxiv : the preprint server for biology · 2023Article
- Advancement in COVID-19 detection using nanomaterial-based biosensors.Exploration (Beijing, China) · 2023Review
- Protein design and variant prediction using autoregressive generative models.Nature communications · 2021Article
- Concepts and Applications of Information Theory to Immuno-Oncology.Trends in cancer · 2021Review
- Unsupervised Inference of Protein Fitness Landscape from Deep Mutational Scan.Molecular biology and evolution · 2021Article
- Using B cell receptor lineage structures to predict affinity.PLoS computational biology · 2020Article
- Network Organization of Antibody Interactions in Sequence and Structure Space: the RADARS Model.Antibodies (Basel, Switzerland) · 2020Article
- The intrinsic dimension of protein sequence evolution.PLoS computational biology · 2019Article
- Epistasis in a Fitness Landscape Defined by Antibody-Antigen Binding Free Energy.Cell systems · 2019Article
- Humanization of Antibodies using a Statistical Inference Approach.Scientific reports · 2018Article
- The Bayesian optimist's guide to adaptive immune receptor repertoire analysis.Immunological reviews · 2018Review
- Polymorphic sites preferentially avoid co-evolving residues in MHC class I proteins.PLoS computational biology · 2018Article
- Entropy is a Simple Measure of the Antibody Profile and is an Indicator of Health Status: A Proof of Concept.Scientific reports · 2017Article
- Improving landscape inference by integrating heterogeneous data in the inverse Ising problem.Scientific reports · 2016Article
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4 authors.
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Abstract
The immune system has developed a number of distinct complex mechanisms to shape and control the antibody repertoire. One of these mechanisms, the affinity maturation process, works in an evolutionary-like fashion: after binding to a foreign molecule, the antibody-producing B-cells exhibit a high-frequency mutation rate in the genome region that codes for the antibody active site. Eventually, cells that produce antibodies with higher affinity for their cognate antigen are selected and clonally expanded. Here, we propose a new statistical approach based on maximum entropy modeling in which a scoring function related to the binding affinity of antibodies against a specific antigen is inferred from a sample of sequences of the immune repertoire of an individual. We use our inference strategy to infer a statistical model on a data set obtained by sequencing a fairly large portion of the immune repertoire of an HIV-1 infected patient. The Pearson correlation coefficient between our scoring function and the IC50 neutralization titer measured on 30 different antibodies of known sequence is as high as 0.77 (p-value 10-6), outperforming other sequence- and structure-based models.
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