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Direct coupling analysis
Simultaneous Identification of Specifically Interacting Paralogs and Interprotein Contacts by Direct Coupling Analysis
Inter-Residue, Inter-Protein and Inter-Family Coevolution: Bridging the Scales
1 Codon-Level Information Improves Predictions of Inter-Residue Contacts in Proteins 2 by Correlated Mutation Analysis 3
Assessing the Utility of Residue-Residue Contact Information in a Sequence and Structure Rich Era
Ensembling Multiple Raw Coevolutionary Features with Deep Residual Neural Networks for Contact‐Map Prediction in CASP13
Direct Information Reweighted by Contact Templates: Improved RNA Contact Prediction by Combining Structural Features
DIRECT: RNA Contact Predictions by Integrating Structural Patterns
Understanding and Improving Statistical Models of Protein Sequences, November 2018
Optimal Alignment of Coevolutionary Models for Protein Sequences
Assessing the Accuracy of Direct-Coupling Analysis for RNA Contact Prediction
Arxiv:2105.01428V1 [Q-Bio.PE] 4 May 2021
And Contact-Based Protein Structure Prediction
Towards a Genome-Scale Coevolutionary Analysis Giancarlo Croce
Statistical Physics of Interacting Proteins: Impact of Dataset Size and Quality Assessed in Synthetic Sequences
From Principal Component to Direct Coupling Analysis of Coevolution in Proteins
Phylogenetic Weighting Does Little to Improve the Accuracy of Evolutionary Coupling Analyses
Distance-Based Protein Folding Powered by Deep Learning
Large-Scale Identification of Coevolution Signals Across Homo-Oligomeric Protein Interfaces by Direct Coupling Analysis
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How Pairwise Coevolutionary Models Capture the Collective Residue Variability in Proteins
Assessing the Accuracy of Direct-Coupling Analysis for RNA Contact Prediction
Arxiv:1503.03815V2 [Q-Bio.QM] 19 Jan 2016 Correlations
Accurate Prediction of Residue-Residue Contacts Across Homo-Oligomeric Protein Interfaces Through Deep Leaning
Large-Scale Identification of Coevolution Signals Across Homo- Oligomeric Protein Interfaces by Direct Coupling Analysis
Arxiv:1211.1281V2 [Q-Bio.QM] 12 Jan 2013 Egigitnegot Nteaon Feitn Data Existing Un- of Branch Amount a the of Is in Example an Growth Intense Tools Sets
Improved Contact Prediction in Proteins: Using Pseudo-Likelihoods to Infer Potts Models
Direct-Coupling Analysis of Residue Coevolution Captures Native Contacts Across Many Protein Families
Protein Contact Prediction by Integrating Joint Evolutionary Coupling Analysis and Supervised Learning
Molecular Evolution of HIV-1 Integrase During the 20 Years Prior to the First Approval of Integrase Inhibitors
Direct-Coupling Analysis of Residue Co-Evolution Captures Native Contacts Across Many Protein Families
From Principal Component to Direct Coupling Analysis of Coevolution in Proteins: Low-Eigenvalue Modes Are Needed for Structure Prediction
A Comprehensive Software for Direct Coupling Analysis of RNA and Protein Sequences
Arxiv:2103.03292V1 [Q-Bio.BM] 4 Mar 2021
Direct-Coupling Analysis of Nucleotide Coevolution Facilitates RNA Secondary and Tertiary Structure Prediction