K. Talley, P. Kundrotas, and E. Alexov. Modeling salt dependence of protein-protein association: Linear vs non-linear Poisson-Boltzmann equation. Commun Comput Phys, volume 3, issue 5, pages 1071-1086, 2008. K. Talley, C. Ng, M. Shoppell, P. Kundrotas, and E. Alexov. On the electrostatic component of protein-protein binding free energy. PMC biophysics, BioMed Central, volume 1, issue 1, pages 1-23, 2008. P. J. Kundrotas, M. F. Lensink, and E. Alexov. Homology-based modeling of 3D structures of protein--protein complexes using alignments of modified sequence profiles. International journal of biological macromolecules, Elsevier, volume 43, issue 2, pages 198-208, 2008. E. Alexov, K. Brock, and P. Kundrotas. Optimization of the electrostatic interactions in protein-protein complexes. APS March Meeting Abstracts, pages K1-021, 2007. P. Kundrotas and E. Alexov. Utilizing Profile-to-Profile Alignments for Predicting Protein-Protein Interactions. APS March Meeting Abstracts, pages K1-020, 2007. P. Kundrotas and E. Alexov. Predicting protein-protein interactions using non-gapped interacting residue segments. BIOPHYSICAL JOURNAL, pages 367A-368A, 2007. P. Kundrotas, P. Georgieva, A. Shosheva, P. Christova, and E. Alexov. BANMOKI: A searchable database of homology-based 3D models and their electrostatic properties of five bacterial nucleoside monophosphate kinase families. International journal of biological macromolecules, Elsevier, volume 41, issue 1, pages 114-119, 2007. P. Kundrotas and E. Alexov. Predicting interacting and interfacial residues using continuous sequence segments. International journal of biological macromolecules, Elsevier, volume 41, issue 5, pages 615-623, 2007. P. Kundrotas, P. Georgieva, A. Shosheva, P. Christova, and E. Alexov. Assessing the quality of the homology-modeled 3D structures from electrostatic standpoint: test on bacterial nucleoside monophosphate kinase families. Journal of bioinformatics and computational biology, World Scientific, volume 5, issue 3, pages 693-715, 2007. K. Brock, K. Talley, K. Coley, P. Kundrotas, and E. Alexov. Optimization of electrostatic interactions in protein-protein complexes. Biophysical journal, Elsevier, volume 93, issue 10, pages 3340-3352, 2007. P. J. Kundrotas and E. Alexov. PROTCOM: searchable database of protein complexes enhanced with domain--domain structures. Nucleic Acids Research, Oxford University Press, volume 35, issue 1, pages D575-D579, 2007. P. Kundrotas and E. Alexov. Optimum pH for protein-protein complexes. APS March Meeting Abstracts, pages C1-121, 2006. E. Alexov, A. Allardice, and P. Kundrotas. Combining biophysical and bioinformatical approaches for predicting residue's contacts. APS March Meeting Abstracts, pages A26-014, 2006. P. Kundrotas and E. Alexov. Predicting 3D structures of transient protein-protein complexes. APS March Meeting Abstracts, pages A26-007, 2006. P. J. Kundrotas and E. Alexov. Predicting 3D structures of transient protein--protein complexes by homology. Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics, Elsevier, volume 1764, issue 9, pages 1498-1511, 2006. P. J. Kundrotas and E. G. Alexov. Predicting residue contacts using pragmatic correlated mutations method: reducing the false positives. BMC bioinformatics, BioMed Central, volume 7, issue 1, pages 1-9, 2006. P. J. Kundrotas and E. Alexov. Electrostatic properties of protein-protein complexes. Biophysical journal, Elsevier, volume 91, issue 5, pages 1724-1736, 2006.