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)

GWIDD: Genome-wide protein docking database. - Petras J. Kundrotas; Zhengwei Zhu 001; Ilya A. Vakser (Nucleic Acids Res., 2010)

FR-HIT, a very fast program to recruit metagenomic reads to homologous reference genomes. - Beifang Niu; Zhengwei Zhu 001; Limin Fu; Sitao Wu; Weizhong Li 002 (Bioinform., 2011)

CD-HIT: accelerated for clustering the next-generation sequencing data. - Limin Fu; Beifang Niu; Zhengwei Zhu 001; Sitao Wu; Weizhong Li 002 (Bioinform., 2012)

MGAviewer: a desktop visualization tool for analysis of metagenomics alignment data. - Zhengwei Zhu 001; Beifang Niu; Jing Chen; Sitao Wu; Shulei Sun; Weizhong Li 002 (Bioinform., 2013)