Accurate de novo structure prediction of large transmembrane protein domains using fragment-assembly and correlated mutation analysis

PSICOV: precise structural contact prediction using sparse inverse covariance estimation on large multiple sequence alignments

(2011) David T. Jones et al.   BIOINFORMATICS

Protein 3D Structure Computed from Evolutionary Sequence Variation

(2011) Debora S. Marks et al.   PLoS One

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

(2011) F. Morcos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Protein topology from predicted residue contacts

(2011) William R. Taylor et al.   PROTEIN SCIENCE

MEDELLER: homology-based coordinate generation for membrane proteins

(2010) Sebastian Kelm et al.   BIOINFORMATICS

How significant is a protein structure similarity with TM-score = 0.5?

(2010) Jinrui Xu et al.   BIOINFORMATICS

Reducing phylogenetic bias in correlated mutation analysis

(2010) Haim Ashkenazy et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Disentangling Direct from Indirect Co-Evolution of Residues in Protein Alignments

(2010) Lukas Burger et al.   PLoS Computational Biology

Predicting Transmembrane Helix Packing Arrangements using Residue Contacts and a Force-Directed Algorithm

(2010) Timothy Nugent et al.   PLoS Computational Biology

Predicting helix–helix interactions from residue contacts in membrane proteins

(2009) Allan Lo et al.   BIOINFORMATICS

Transmembrane protein topology prediction using support vector machines

(2009) Timothy Nugent et al.   BMC BIOINFORMATICS

Biophysical dissection of membrane proteins

(2009) Stephen H. White   NATURE

The Pfam protein families database

(2009) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Prediction of membrane protein structures with complex topologies using limited constraints

(2009) P. Barth et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assessment of domain boundary predictions and the prediction of intramolecular contacts in CASP8

(2009) Iakes Ezkurdia et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

SPOCTOPUS: a combined predictor of signal peptides and membrane protein topology

(2008) Håkan Viklund et al.   BIOINFORMATICS

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

(2008) M. Weigt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prediction of membrane-protein topology from first principles

(2008) A. Bernsel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predicting residue-residue contact maps by a two-layer, integrated neural-network method

(2008) Bin Xue et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Prediction of helix-helix contacts and interacting helices in polytopic membrane proteins using neural networks

(2008) Angelika Fuchs et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS