SIDOROV, Pavel

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SIDOROV, Pavel
Junior PI, Associate Professor
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Contact

pavel.sidorov atmark icredd.hokudai.ac.jp

SIDOROV, Pavel Group
Junior PI
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    SIDOROV, Pavel
Postdoctoral Fellows

About the Research

Research Theme

In silico design of new molecules, materials and reactions

Keyword

Chemical databases, Quantitative Structure-Property Relationships (QSPR), Machine learning
Research Outline

My research was focused on exploration and analysis of chemical space, as well as Quantitative Structure-Property Relationships modeling, from redox properties to the biological activity of antimalarial drugs or pairs of anti-cancer drugs. Now, in addition to QSPR modeling of reaction parameters, I study approaches for generation of novel compounds and reactions by Deep neural networks.

Research History

See my CV

Representative Research Achievements

  • Mappability of drug-like space: towards a polypharmacologically competent map of drug-relevant compounds
    P. Sidorov, H. Gaspar, G. Marcou, A. Varnek, D. Horvath, J. Comp.Aid. Mol. Des., 2015, 29, 1087-1108
    DOI: 10.1007/s10822-015-9882-z
  • AntiMalarial Mode of Action (AMMA) Database: Data Selection, Verification and Chemical Space Analysis
    P. Sidorov, E. Davioud‐Charvet, G. Marcou, D. Horvath, A. Varnek, Mol. Inf., 2018, 9-10, 1800021
    DOI: 10.1002/minf.201800021
  • Electrochemical Properties of Substituted 2‐Methyl‐1, 4‐Naphthoquinones: Redox Behavior Predictions
    M. Elhabiri, P. Sidorov, E. Cesar‐Rodo, G. Marcou, D.A. Lanfranchi, E. Davioud‐Charvet, D. Horvath, A. Varnek, Chem. Eur. J., 2015, 21, 3415-3424
    DOI: 10.1002/chem.201403703
  • Predicting synergism of cancer drug combinations using NCI-ALMANAC data
    P. Sidorov, S. Naulaerts, J. Ariey-Bonnet, E. Pasquier, P. Ballester, Front. In Chem., 2019, 7, 509
    DOI: 10.3389/fchem.2019.00509
  • Classical scoring functions for docking are unable to exploit large volumes of structural and interaction data
    H. Li, J. Peng, P. Sidorov, Y. Leung, K.-S. Leung, M.-H. Wong, G. Lu, P. Ballester, Bioinformatics, 2019, 35, 3989-3995
    DOI: 10.1093/bioinformatics/btz183

Related Research

Publications

2023

  • A Primer on 2D Descriptors in Selectivity Modeling for Asymmetric Catalysis
    P. Sidorov, N. Tsuji, Chem. Eur. J., 2023, , e202302837
    DOI: 10.1002/chem.202302837
  • Multi-Instance Learning Approach to the Modeling of Enantioselectivity of Conformationally Flexible Organic Catalysts
    D. Zankov, T. Madzhidov, P. Polishchuk, P. Sidorov, A. Varnek, J. Chem. Inf. Model., 2023, 63, 21, 6629–6641
    DOI: 10.1021/acs.jcim.3c00393
  • Predicting Highly Enantioselective Catalysts Using Tunable Fragment Descriptors
    N. Tsuji, P. Sidorov, C. D. Zhu, Y. Nagata, T. Gimadiev, A. Varnek, B. List, Angew. Chem., Int. Ed., 2023, ,
    DOI: 10.1002/anie.202218659

2022

  • CGRdb2.0: A Python Database Management System for Molecules, Reactions, and Chemical Data
    T. Gimadiev, R. Nugmanov, A. Khakimova, A. Fatykhova, T. Madzhidov, P. Sidorov, A. Varnek, J. Chem. Inf. Model., 2022, 62, 2015-2020
    DOI: 10.1021/acs.jcim.1c01105

2021

  • Atom-to-Atom Mapping: A Benchmarking Study of Popular Mapping Algorithms and Consensus Strategies
    A. Lin, N. Dyubankova, T. I. Madzhidov, R. I. Nugmanov, J. Verhoeven, T. R. Gimadiev, V. A. Afonina, Z. Ibragimova, A. Rakhimbekova, P. Sidorov, A. Gedich, R. Suleymanov, R. Mukhametgaleev, J. Wegner, H. Ceulemans, A. Varnek, Molecular Informatics, 2021, 41,
    DOI: 10.1002/minf.202100138
  • Reaction Data Curation I: Chemical Structures and Transformations Standardization
    T. R. Gimadiev, A. Lin, V. A. Afonina, D. Batyrshin, R. I. Nugmanov, T. Akhmetshin, P. Sidorov, N. Duybankova, J. Verhoeven, J. Wegner, H. Ceulemans, A. Gedich, T. I. Madzhidov, A. Varnek, Molecular Informatics, 2021, 40,
    DOI: 10.1002/minf.202100119
  • Discovery of Novel Chemical Reactions by Deep Generative Recurrent Neural Network
    W. Bort, I. Baskin, T. Gimadiev, A. Mukanov, R. Nugmanov, P. Sidorov, G. Marcou, D. Horvath, O. Klimchuk, T. Madzhidov, A. Varnek, Scientific Reports, 2021, 11, 15
    DOI: 10.1038/s41598-021-81889-y
  • Combined Graph/Relational Database Management System for Calculated Chemical Reaction Pathway Data
    T. Gimadiev, R. Nugmanov, D. Batyrshin, T. Madzhidov, S. Maeda, P. Sidorov, A. Varnek, J. Chem. Inf. Model., 2021, 61, 554-559
    DOI: 10.1021/acs.jcim.0c01280