PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins. - Vladimir A. Ivanisenko; Sergey S. Pintus; Dmitry A. Grigorovich; Nikolay A. Kolchanov (Nucleic Acids Res., 2004)

PDBSite: a database of the 3D structure of protein functional sites. - Vladimir A. Ivanisenko; Sergey S. Pintus; Dmitry A. Grigorovich; Nikolay A. Kolchanov (Nucleic Acids Res., 2005)

Phylogenetic Analysis of the p53 and p63/p73 Gene Families. - Sergey S. Pintus; Eduard S. Fomin; Ivan S. Oshurkov; Vladimir A. Ivanisenko (Silico Biol., 2007)

BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data. - Fedor A. Kolpakov; Ilya R. Akberdin; Timur A. Kashapov; llya Kiselev; Semyon Kolmykov; Yury V. Kondrakhin; Elena Kutumova; Nikita Mandrik; Sergey S. Pintus; Anna Ryabova; Ruslan N. Sharipov; Ivan S. Yevshin; et al. (Nucleic Acids Res., 2019)

BioUML - towards a universal research platform. - Fedor A. Kolpakov; Ilya R. Akberdin; Ilya Kiselev; Semyon Kolmykov; Yury V. Kondrakhin; Mikhail Kulyashov; Elena Kutumova; Sergey S. Pintus; Anna Ryabova; Ruslan N. Sharipov; Ivan S. Yevshin; Sergey Zhatchenko; et al. (Nucleic Acids Res., 2022)

Prediction and annotation of alternative transcription starts and promoter shift in the chicken genome. - Valentina A. Grushina; Ivan S. Yevshin; Oleg A. Gusev; Fedor A. Kolpakov; Olga I. Stanishevskaya; Elena S. Fedorova; Natalia A. Zinovieva; Sergey S. Pintus (J. Bioinform. Comput. Biol., 2025)