| 2013 | PACT | Enhanced Differential Evolution Entirely Parallel Method for Biomedical Applications. | Konstantin Kozlov, Nikita Ivanisenko, Vladimir A. Ivanisenko, Nikolay A. Kolchanov, Maria Samsonova, Alexander M. Samsonov |
| 2009 | IMVIP | Estimation of Errors in Gene Expression Data Introduced by Diffractive Blurring of Confocal Images. | Ekaterina M. Myasnikova, Svetlana Surkova, Maria Samsonova, John Reinitz |
| 2003 | ISMB | Processing of natural language queries to a relational database. | Maria Samsonova, Andrei Pisarev, Maxim Blagov |
| 2002 | ISMB | Support vector regression applied to the determination of the developmental age of a Drosophila embryo from its segmentation gene expression patterns. | Ekaterina M. Myasnikova, Anastassia Samsonova, Maria Samsonova, John Reinitz |
| 2001 | IWANN | Classification of the Images of Gene Expression Patterns Using Neural Networks Based on Multi-valued Neurons. | Igor N. Aizenberg, Ekaterina M. Myasnikova, Maria Samsonova |
| 2000 | ICPR | Fast Redundant Dyadic Wavelet Transform in Application to Spatial Registration of the Expression Patterns of Drosophila Segmentation Genes. | Konstantin Kozlov, Ekaterina M. Myasnikova, Maria Samsonova, John Reinitz, David Kosman |
| 1999 | ISMB | Spatio-Temporal Registration of the Expression Patterns of Drosophila Segmentation Genes. | Ekaterina M. Myasnikova, David Kosman, John Reinitz, Maria Samsonova |
| 1999 | PSB | NetWork: An Interactive Interface to the Tools for Analysis of Genetic Network Structure and Dynamics. | Maria Samsonova, Vassili N. Serov |