A toolbox for developing bioinformatics software

ModeRNA: a tool for comparative modeling of RNA 3D structure

(2011) Magdalena Rother et al.   NUCLEIC ACIDS RESEARCH

IGERS: Inferring Gibbs Energy Changes of Biochemical Reactions from Reaction Similarities

(2010) Kristian Rother et al.   BIOPHYSICAL JOURNAL

Publish your computer code: it is good enough

(2010) Nick Barnes   NATURE

Computational science: ...Error

(2010) Zeeya Merali   NATURE

REPAIRtoire--a database of DNA repair pathways

(2010) K. Milanowska et al.   NUCLEIC ACIDS RESEARCH

Correlation to Protein Conformation of Wide-Angle X-ray Scatter Parameters

(2010) Wael M. Elshemey et al.   PROTEIN JOURNAL

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

BioJava: an open-source framework for bioinformatics

(2008) R. C. G. Holland et al.   BIOINFORMATICS

Voronoia: analyzing packing in protein structures

(2008) K. Rother et al.   NUCLEIC ACIDS RESEARCH

MODOMICS: a database of RNA modification pathways. 2008 update

(2008) A. Czerwoniec et al.   NUCLEIC ACIDS RESEARCH

InterPro: the integrative protein signature database

(2008) S. Hunter et al.   NUCLEIC ACIDS RESEARCH

From knotted to nested RNA structures: A variety of computational methods for pseudoknot removal

(2008) S. Smit et al.   RNA

Hydrogen-Bonding and Packing Features of Membrane Proteins: Functional Implications

(2007) Peter Werner Hildebrand et al.   BIOPHYSICAL JOURNAL