• Afonina V.A, Mazitov D.A, Nurmukhametova A, Prediction of optimal conditions of hydrogenation reaction using the likelihood ranking approach//International Journal of Molecular Sciences. - 2022. - Vol.23, Is.1. - Art. №248.
• Lin A, Dyubankova N, Madzhidov T.I, Atom-to-atom Mapping: A Benchmarking Study of Popular Mapping Algorithms and Consensus Strategies//Molecular Informatics. - 2022. - Vol. 41, Is.4. - Art.No2100138.

• Madzhidov T.I, Rakhimbekova A, Afonina V.A, Machine learning modelling of chemical reaction characteristics: yesterday, today, tomorrow//Mendeleev Communications. - 2021. - Vol.31, Is.6. - P.769-780.
• Gimadiev Timur R., Lin Arkadii, Afonina Valentina A., Reaction Data Curation I: Chemical Structures and Transformations Standardization/Molecular Informatics. - 2021. - Vol.40, Is.12. - Art. №2100119.

• Madzhidov T.I. Deep conditional variational autoencoder for reaction conditions prediction / T.I.Madzhidov, D.A. Mazitov, V.A. Afonina, T.N. Akhmetshin, J.D. Skibina, A.I. Lin, R.I. Nugmanov, A. Varnek // 3rd RSC-BMCS/RSC-CICAG Artificial Intelligence in Chemistry. - London, 2020. - P. 55.
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• Afonina, V.A. Extended Interactive Greene's Reactivity Charts / V.A. Afonina, S.I. Musaeva, R.I. Nugmanov, T.I. Madzhidov, A. Varnek // XI International Conference on Chemistry for Young Scientists “Mendeleev 2019”: Book of abstracts. – Saint Petersburg, 2019. – P. 382.
• Nugmanov R.I, Mukhametgaleev R.N, Akhmetshin T, CGRtools: Python Library for Molecule, Reaction, and Condensed Graph of Reaction Processing//Journal of Chemical Information and Modeling. - 2019. - Vol. 59, Is. 6. - 2516-2521.

• Afonina, V.A. Reaction conditions prediction by artificial neural networks / V.A. Afonina, A. Delova, R.I. Nugmanov, T.I. Madzhidov, O. Klimchuk, A. Varnek // Third International School-Seminar «From Empirical to Predictive Chemistry« (Kazan, 5-7 April 2018): book of abstracts. - Kazan: Kazan Federal University, 2018. - P. 31.
• Fatykhova A. Automated system for searching reactions, reaction centers and analysis of protective groups using CGR-DB cartridge / A. Fatykhova, R. Nugmanov, R. Mukhametgaleev, S. Musaeva, V. Afonina, T. Madzhidov, A. Varnek //In search of models for personalized medicine. Abstracts volume of V International conference “POSTGENOME'2018” (October 29 - November 2, 2018) - Kazan: KFU publishing office. 2018. - P. 319. (poster presentation)
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• Lin A, Horvath D, Afonina V, Mapping of the Available Chemical Space versus the Chemical Universe of Lead-Like Compounds//ChemMedChem. - 2018. - Vol. 13, Is. 6. - P. 540-554.

• Afonina, V.A. Automatic system for prediction of optimal condition for hydrogenation reactions / V. Afonina, A. Lin, T. Madzhidov, R. Nugmanov, I. Antipin, O. Klimchuk, A. Varnek // 3rd Kazan Summer School on Chemoinformatics (5–7 July 2017, Kazan). – Kazan: Kazan Federal University, 2017. - P. 38.

• Afonina, V.A. Mapping of the Chemical Universe vs Available Chemical Space of Lead-Like Compounds / V.A. Afonina, D. Horvath, A. Varnek // XX Mendeleev Congress on general and applied chemistry. Five-volumes book. Vol.5: abstracts. - Ekaterinburg: Ural Branch of the Russian Academy of Sciences, 2016. - P.126.
• Afonina V.A. Mapping of the Chemical Uni-verse versus Available Chemical Space of Lead-Like Compounds / V.A. Afonina, D. Horvath, A. Varnek // 5th Chemoinformatics Strasbourg Summer School: Strasbourg, 27 June - 1 July 2016. – P. 77.