Protein structure networks

ModuLand plug-in for Cytoscape: determination of hierarchical layers of overlapping network modules and community centrality

(2012) Máté Szalay-Bekő et al.   BIOINFORMATICS

Protein folding by ‘levels of separation’: A hypothesis

(2012) Lesley H. Greene et al.   FEBS LETTERS

The Protein Data Bank at 40: Reflecting on the Past to Prepare for the Future

(2012) Helen M. Berman et al.   STRUCTURE

Network analysis of transmembrane protein structures

(2011) I. Arnold Emerson et al.   PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

Mapping allostery through the covariance analysis of NMR chemical shifts

(2011) R. Selvaratnam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Analyzing and visualizing residue networks of protein structures

(2011) Nadezhda T. Doncheva et al.   TRENDS IN BIOCHEMICAL SCIENCES

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Folding Network of Villin Headpiece Subdomain

(2010) Hongxing Lei et al.   BIOPHYSICAL JOURNAL

Universality in Protein Residue Networks

(2010) Ernesto Estrada   BIOPHYSICAL JOURNAL

Comparative analysis of thermophilic and mesophilic proteins using Protein Energy Networks

(2010) MS Vijayabaskar et al.   BMC BIOINFORMATICS

The RCSB Protein Data Bank: redesigned web site and web services

(2010) P. W. Rose et al.   NUCLEIC ACIDS RESEARCH

Stability of graph communities across time scales

(2010) J.- C. Delvenne et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The kinemage: A tool for scientific communication

(2010) David C. Richardson et al.   PROTEIN SCIENCE

Understanding Protein Structure from a Percolation Perspective

(2009) Dhruba Deb et al.   BIOPHYSICAL JOURNAL

Protein Sectors: Evolutionary Units of Three-Dimensional Structure

(2009) Najeeb Halabi et al.   CELL

The CATH Hierarchy Revisited—Structural Divergence in Domain Superfamilies and the Continuity of Fold Space

(2009) Alison Cuff et al.   STRUCTURE

Proteins As Networks: Usefulness of Graph Theory in Protein Science

(2008) Alessandro Giuliani et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Identifying folding nucleus based on residue contact networks of proteins

(2008) Jie Li et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein cutoff scanning: A comparative analysis of cutoff dependent and cutoff free methods for prospecting contacts in proteins

(2008) Carlos H. da Silveira et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS