List of works - Martin Weigt

A ferromagnet with a glass transition

A multi-scale coevolutionary approach to predict interactions between protein domains

scientific article published on 21 October 2019

Aligning graphs and finding substructures by a cavity approach

An evolution-based model for designing chorismate mutase enzymes

scientific article published on 01 July 2020

Cavity approach to the random solid state

scientific article published on 28 September 2005

Classification and sparse-signature extraction from gene-expression data

article

Clustering by soft-constraint affinity propagation: applications to gene-expression data

scientific article

Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1. ⬇️

scientific article

Coloring random graphs.

scientific article published on 9 December 2002

Computational complexity arising from degree correlations in networks.

scientific article

Computational modeling of phosphotransfer complexes in two-component signaling

scientific article published on March 2010

Core percolation and onset of complexity in boolean networks.

scientific article published on 4 January 2006

Deciphering polymorphism in 61,157 Escherichia coli genomes via epistatic sequence landscapes

scientific article published in 2022

Direct coevolutionary couplings reflect biophysical residue interactions in proteins

scientific article published on November 2016

Direct coupling analysis for protein contact prediction.

scientific article

Direct-Coupling Analysis of nucleotide coevolution facilitates RNA secondary and tertiary structure prediction

scientific article

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

scientific article

Dissecting the specificity of protein-protein interaction in bacterial two-component signaling: orphans and crosstalks

scientific article published in 2011

Epistatic models predict mutable sites in SARS-CoV-2 proteins and epitopes

scientific article published on 12 January 2022

Fast and accurate multivariate Gaussian modeling of protein families: predicting residue contacts and protein-interaction partners ⬇️

scientific article

FilterDCA: Interpretable supervised contact prediction using inter-domain coevolution

scientific article published on 09 October 2020

From principal component to direct coupling analysis of coevolution in proteins: low-eigenvalue modes are needed for structure prediction

scientific article

From sequence variability to structural and functional prediction: modeling of homologous protein families

scientific article published in January 2017

Gene-network inference by message passing

Genomics-aided structure prediction

scientific article

Hiding solutions in random satisfiability problems: a statistical mechanics approach.

scientific article published on 18 April 2002

High-resolution protein complexes from integrating genomic information with molecular simulation

scientific article

Identification of direct residue contacts in protein-protein interaction by message passing

scientific article (publication date: 30 December 2008)

Improved contact prediction in proteins: using pseudolikelihoods to infer Potts models

scientific article published on 11 January 2013

Improving landscape inference by integrating heterogeneous data in the inverse Ising problem ⬇️

scientific article

Inference algorithms for gene networks: a statistical mechanics analysis

article

Inference of direct residue contacts in two-component signaling

scientific article

Inference of sparse combinatorial-control networks from gene-expression data: a message passing approach

scientific article

Inter-Protein Sequence Co-Evolution Predicts Known Physical Interactions in Bacterial Ribosomes and the Trp Operon ⬇️

scientific article

Inter-residue, inter-protein and inter-family coevolution: bridging the scales.

scientific article published in November 2017

Inverse Statistical Physics of Protein Sequences: A Key Issues Review

scientific article published on 9 November 2017

Large-scale identification of coevolution signals across homo-oligomeric protein interfaces by direct coupling analysis

scientific article published on 13 March 2017

Meet-U: Educating through research immersion.

scientific article published on 15 March 2018

Message passing for vertex covers.

scientific article published on 12 October 2006

Multifractal analysis of the coupling space of feedforward neural networks

scientific article published on 01 March 1996

Mutator genomes decay, despite sustained fitness gains, in a long-term experiment with bacteria

scientific article published on 10 October 2017

Number of Guards Needed by a Museum: A Phase Transition in Vertex Covering of Random Graphs

scientific article published in Physical Review Letters

On the properties of small-world network models

article

Perturbation biology: inferring signaling networks in cellular systems

scientific article (publication date: 2013)

Phylogenetic correlations can suffice to infer protein partners from sequences

scientific article published on 14 October 2019

Polynomial iterative algorithms for coloring and analyzing random graphs.

scientific article published on 3 September 2003

Predicting Interacting Protein Pairs by Coevolutionary Paralog Matching

scientific article published on 01 January 2020

Propagation of external regulation and asynchronous dynamics in random Boolean networks

scientific article published on 01 June 2007

Selection of sequence motifs and generative Hopfield-Potts models for protein families

scientific article published on 01 September 2019

Simplest randomK-satisfiability problem

Simultaneous identification of specifically interacting paralogs and interprotein contacts by direct coupling analysis. ⬇️

scientific article

Solving satisfiability problems by fluctuations: The dynamics of stochastic local search algorithms

article

Statistical mechanics of combinatorial auctions.

scientific article published on 20 September 2006

Statistical mechanics of sparse generalization and graphical model selection

article published in 2009

Structural basis of histidine kinase autophosphorylation deduced by integrating genomics, molecular dynamics, and mutagenesis

scientific article

Structures of a dimodular nonribosomal peptide synthetase reveal conformational flexibility

scientific article

The computational core and fixed point organization in Boolean networks

article published in 2006

The evolution of the temporal program of genome replication

The evolution of the temporal program of genome replication.

scientific article published on 6 June 2018

The importance of dilution in the inference of biological networks

Threshold values, stability analysis, and high-q asymptotics for the coloring problem on random graphs.

scientific article published on 29 October 2004

Typical solution time for a vertex-covering algorithm on finite-connectivity random graphs.

scientific article published in February 2001

List of works by Martin Weigt

A ferromagnet with a glass transition

A multi-scale coevolutionary approach to predict interactions between protein domains

Aligning graphs and finding substructures by a cavity approach

An evolution-based model for designing chorismate mutase enzymes

Cavity approach to the random solid state

Classification and sparse-signature extraction from gene-expression data

Clustering by soft-constraint affinity propagation: applications to gene-expression data

Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1. ⬇️

Coloring random graphs.

Computational complexity arising from degree correlations in networks.

Computational modeling of phosphotransfer complexes in two-component signaling

Core percolation and onset of complexity in boolean networks.

Deciphering polymorphism in 61,157 Escherichia coli genomes via epistatic sequence landscapes

Direct coevolutionary couplings reflect biophysical residue interactions in proteins

Direct coupling analysis for protein contact prediction.

Direct-Coupling Analysis of nucleotide coevolution facilitates RNA secondary and tertiary structure prediction

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

Dissecting the specificity of protein-protein interaction in bacterial two-component signaling: orphans and crosstalks

Epistatic models predict mutable sites in SARS-CoV-2 proteins and epitopes

Fast and accurate multivariate Gaussian modeling of protein families: predicting residue contacts and protein-interaction partners ⬇️

FilterDCA: Interpretable supervised contact prediction using inter-domain coevolution

From principal component to direct coupling analysis of coevolution in proteins: low-eigenvalue modes are needed for structure prediction

From sequence variability to structural and functional prediction: modeling of homologous protein families

Gene-network inference by message passing

Genomics-aided structure prediction

Hiding solutions in random satisfiability problems: a statistical mechanics approach.

High-resolution protein complexes from integrating genomic information with molecular simulation

Identification of direct residue contacts in protein-protein interaction by message passing

Improved contact prediction in proteins: using pseudolikelihoods to infer Potts models

Improving landscape inference by integrating heterogeneous data in the inverse Ising problem ⬇️

Inference algorithms for gene networks: a statistical mechanics analysis

Inference of direct residue contacts in two-component signaling

Inference of sparse combinatorial-control networks from gene-expression data: a message passing approach

Inter-Protein Sequence Co-Evolution Predicts Known Physical Interactions in Bacterial Ribosomes and the Trp Operon ⬇️

Inter-residue, inter-protein and inter-family coevolution: bridging the scales.

Inverse Statistical Physics of Protein Sequences: A Key Issues Review

Large-scale identification of coevolution signals across homo-oligomeric protein interfaces by direct coupling analysis

Meet-U: Educating through research immersion.

Message passing for vertex covers.

Multifractal analysis of the coupling space of feedforward neural networks

Mutator genomes decay, despite sustained fitness gains, in a long-term experiment with bacteria

Number of Guards Needed by a Museum: A Phase Transition in Vertex Covering of Random Graphs

On the properties of small-world network models

Perturbation biology: inferring signaling networks in cellular systems

Phylogenetic correlations can suffice to infer protein partners from sequences

Polynomial iterative algorithms for coloring and analyzing random graphs.

Predicting Interacting Protein Pairs by Coevolutionary Paralog Matching

Propagation of external regulation and asynchronous dynamics in random Boolean networks

Selection of sequence motifs and generative Hopfield-Potts models for protein families

Simplest randomK-satisfiability problem

Simultaneous identification of specifically interacting paralogs and interprotein contacts by direct coupling analysis. ⬇️

Solving satisfiability problems by fluctuations: The dynamics of stochastic local search algorithms

Statistical mechanics of combinatorial auctions.

Statistical mechanics of sparse generalization and graphical model selection

Structural basis of histidine kinase autophosphorylation deduced by integrating genomics, molecular dynamics, and mutagenesis

Structures of a dimodular nonribosomal peptide synthetase reveal conformational flexibility

The computational core and fixed point organization in Boolean networks

The evolution of the temporal program of genome replication

The evolution of the temporal program of genome replication.

The importance of dilution in the inference of biological networks

Threshold values, stability analysis, and high-q asymptotics for the coloring problem on random graphs.

Typical solution time for a vertex-covering algorithm on finite-connectivity random graphs.