Indigo: universal cheminformatics API. - Dmitry Pavlov; Mikhail Rybalkin; Boris Karulin; Mikhail Kozhevnikov; Alexey Savelyev; A. Churinov (J. Cheminformatics, 2011)

All-atom polarizable force field for DNA based on the classical drude oscillator model. - Alexey Savelyev; Alexander D. MacKerell Jr. (J. Comput. Chem., 2014)

GenApp Integrated with OpenStack Supports Elastic Computing on Jetstream. - Emre H. Brookes; Alexey Savelyev (PEARC, 2017)

GenApp: Extensible tool for rapid generation of web and native GUI applications. - Alexey Savelyev; Emre H. Brookes (Future Gener. Comput. Syst., 2019)

Moving analytical ultracentrifugation software to a good manufacturing practices (GMP) environment. - Alexey Savelyev; Gary Gorbet; Amy Henrickson; Borries Demeler (PLoS Comput. Biol., 2020)