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Repertoire-Based Diagnostics Using Statistical Biophysics

https://doi.org/10.1101/519108

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s00239-013-9565-0openalex-snapshot

Unearthing the Root of Amino Acid Similarity

inferredcites →https://doi.org/10.1016/j.chom.2013.05.008openalex-snapshot

Convergent Antibody Signatures in Human Dengue

inferredcites →https://doi.org/10.1016/j.jmb.2010.10.030openalex-snapshot

A New Clustering of Antibody CDR Loop Conformations

inferredcites →https://doi.org/10.1016/j.str.2014.11.010openalex-snapshot

The Origin of CDR H3 Structural Diversity

inferredcites →https://doi.org/10.1016/s1043-4682(10)80014-5openalex-snapshot

Immunoglobulin superfamily: Structure, function and relationship to other receptor molecules

inferredcites →https://doi.org/10.1021/jm00390a003openalex-snapshot

Peptide quantitative structure-activity relationships, a multivariate approach

inferredcites →https://doi.org/10.1021/jm9700575openalex-snapshot

New Chemical Descriptors Relevant for the Design of Biologically Active Peptides. A Multivariate Characterization of 87 Amino Acids

inferredcites →https://doi.org/10.1038/nature03990openalex-snapshot

Natural-like function in artificial WW domains

inferredcites →https://doi.org/10.1038/ng.3822openalex-snapshot

Immunosequencing identifies signatures of cytomegalovirus exposure history and HLA-mediated effects on the T cell repertoire

inferredcites →https://doi.org/10.1073/pnas.1001705107openalex-snapshot

Maximum entropy models for antibody diversity

inferredcites →https://doi.org/10.1073/pnas.1312146110openalex-snapshot

Genetic measurement of memory B-cell recall using antibody repertoire sequencing

inferredcites →https://doi.org/10.1073/pnas.1403278111openalex-snapshot

Antibody repertoire deep sequencing reveals antigen-independent selection in maturing B cells

inferredcites →https://doi.org/10.1074/jbc.m507210200openalex-snapshot

An Active Enzyme Constructed from a 9-Amino Acid Alphabet

inferredcites →https://doi.org/10.1089/1066527041410418openalex-snapshot

Maximum Entropy Modeling of Short Sequence Motifs with Applications to RNA Splicing Signals

inferredcites →https://doi.org/10.1093/bioinformatics/17.8.686openalex-snapshot

Amino acid similarity matrices based on force fields

inferredcites →https://doi.org/10.1093/molbev/msm144openalex-snapshot

On Reduced Amino Acid Alphabets for Phylogenetic Inference

inferredcites →https://doi.org/10.1093/nar/27.1.209openalex-snapshot

IMGT, the international ImMunoGeneTics database

inferredcites →https://doi.org/10.1093/nar/28.1.219openalex-snapshot

IMGT, the international ImMunoGeneTics database

inferredcites →https://doi.org/10.1093/nar/gkv951openalex-snapshot

PubChem Substance and Compound databases

inferredcites →https://doi.org/10.1101/483131openalex-snapshot

Immunological Diversity with Similarity

inferredcites →https://doi.org/10.1103/physrevlett.100.078102openalex-snapshot

Maximum Entropy Approach for Deducing Amino Acid Interactions in Proteins

inferredcites →https://doi.org/10.1109/mcse.2013.134openalex-snapshot

Federated Computing for the Masses--Aggregating Resources to Tackle Large-Scale Engineering Problems

inferredcites →https://doi.org/10.1109/mcse.2014.80openalex-snapshot

XSEDE: Accelerating Scientific Discovery

inferredcites →https://doi.org/10.1126/scitranslmed.3001442openalex-snapshot

Overlap and Effective Size of the Human CD8 + T Cell Receptor Repertoire

inferredcites →https://doi.org/10.1126/scitranslmed.3004794openalex-snapshot

Lineage Structure of the Human Antibody Repertoire in Response to Influenza Vaccination

inferredcites →https://doi.org/10.1158/0008-5472.can-18-2292openalex-snapshot

Biophysicochemical Motifs in T-cell Receptor Sequences Distinguish Repertoires from Tumor-Infiltrating Lymphocyte and Adjacent Healthy Tissue

inferredcites →https://doi.org/10.1186/s12859-017-1814-6openalex-snapshot

Statistical classifiers for diagnosing disease from immune repertoires: a case study using multiple sclerosis

inferredcites →https://doi.org/10.1214/ss/1028905934openalex-snapshot

Simulating normalizing constants: from importance sampling to bridge sampling to path sampling

inferredcites →https://doi.org/10.1371/journal.pone.0022365openalex-snapshot

High-Resolution Description of Antibody Heavy-Chain Repertoires in Humans

inferredcites →https://doi.org/10.1371/journal.pone.0028766openalex-snapshot

Protein 3D Structure Computed from Evolutionary Sequence Variation

inferredcites →https://doi.org/10.1371/journal.pone.0154811openalex-snapshot

Improving Loop Modeling of the Antibody Complementarity-Determining Region 3 Using Knowledge-Based Restraints

inferredcites →https://doi.org/10.1371/journal.pone.0160853openalex-snapshot

A Public Database of Memory and Naive B-Cell Receptor Sequences

inferredcites →https://doi.org/10.3389/fimmu.2017.00430openalex-snapshot

Specificity, Privacy, and Degeneracy in the CD4 T Cell Receptor Repertoire Following Immunization

inferredcites →https://doi.org/10.3758/s13423-016-1015-8openalex-snapshot

A simple introduction to Markov Chain Monte–Carlo sampling

inferredcites →https://doi.org/10.4049/jimmunol.1700594openalex-snapshot

Learning the High-Dimensional Immunogenomic Features That Predict Public and Private Antibody Repertoires

inferredcites →https://doi.org/10.48550/arxiv.0712.4397openalex-snapshot

Rediscovering the power of pairwise interactions

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/978-3-030-89477-1_3openalex-snapshot

Diagnostics by Statistical Characteristics of Different Deep Levels

inferred← citeshttps://doi.org/10.1016/b978-0-12-809633-8.20114-3openalex-snapshot

Genetics and Population Analysis

inferred← citeshttps://doi.org/10.1016/j.sbi.2020.11.008openalex-snapshot

Progress toward improved understanding of antibody maturation

inferred← citeshttps://doi.org/10.1073/pnas.2203505119openalex-snapshot

Repertoire-scale measures of antigen binding

inferred← citeshttps://doi.org/10.1074/jbc.rev120.010181openalex-snapshot

How repertoire data are changing antibody science

inferred← citeshttps://doi.org/10.1093/bib/bbz095openalex-snapshot

Computational approaches to therapeutic antibody design: established methods and emerging trends

inferred← citeshttps://doi.org/10.1093/bioinformatics/btaa158openalex-snapshot

immuneSIM: tunable multi-feature simulation of B- and T-cell receptor repertoires for immunoinformatics benchmarking

inferred← citeshttps://doi.org/10.1101/2020.06.18.159699openalex-snapshot

Private Antibody Repertoires Are Public

inferred← citeshttps://doi.org/10.1101/759498openalex-snapshot

A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding

inferred← citeshttps://doi.org/10.3929/ethz-b-000475562openalex-snapshot

A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding

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