DOCKGROUND resource for studying protein-protein interfaces. - Dominique Douguet; Huei-Chi Chen; Andrey Tovchigrechko; Ilya A. Vakser (Bioinform., 2006)

GRAMM-X public web server for protein-protein docking. - Andrey Tovchigrechko; Ilya A. Vakser (Nucleic Acids Res., 2006)

Large-Scale Structural Modeling of protein complexes at Low Resolution. - Zhengwei Zhu 001; Andrey Tovchigrechko; Tatiana Baronova; Ying Gao; Dominique Douguet; Nicholas O'Toole; Ilya A. Vakser (J. Bioinform. Comput. Biol., 2008)

Parallelizing BLAST and SOM Algorithms with MapReduce-MPI Library. - Seung-Jin Sul; Andrey Tovchigrechko (IPDPS Workshops, 2011)

PGP: parallel prokaryotic proteogenomics pipeline for MPI clusters, high-throughput batch clusters and multicore workstations. - Andrey Tovchigrechko; Pratap Venepally; Samuel H. Payne (Bioinform., 2014)