| GTRD: a database on gene transcription regulation—2019 update I Yevshin, R Sharipov, S Kolmykov, Y Kondrakhin, F Kolpakov Nucleic acids research 47 (D1), D100-D105, 2019 | 241 | 2019 |
| GTRD: an integrated view of transcription regulation S Kolmykov, I Yevshin, M Kulyashov, R Sharipov, Y Kondrakhin, ... Nucleic acids research 49 (D1), D104-D111, 2021 | 205 | 2021 |
| Landscape of allele-specific transcription factor binding in the human genome S Abramov, A Boytsov, D Bykova, DD Penzar, I Yevshin, SK Kolmykov, ... Nature communications 12 (1), 2751, 2021 | 86 | 2021 |
| BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data F Kolpakov, I Akberdin, T Kashapov, L Kiselev, S Kolmykov, Y Kondrakhin, ... Nucleic acids research 47 (W1), W225-W233, 2019 | 58 | 2019 |
| HOCOMOCO in 2024: a rebuild of the curated collection of binding models for human and mouse transcription factors IE Vorontsov, IA Eliseeva, A Zinkevich, M Nikonov, S Abramov, A Boytsov, ... Nucleic Acids Research 52 (D1), D154-D163, 2024 | 38 | 2024 |
| BioUML—Towards a universal research platform F Kolpakov, I Akberdin, I Kiselev, S Kolmykov, Y Kondrakhin, M Kulyashov, ... Nucleic Acids Research 50 (W1), W124-W131, 2022 | 21 | 2022 |
| The effect of xenobiotics on microRNA expression in the rat liver LF Gulyaeva, MD Chanyshev, SK Kolmykov, DS Ushakov, SS Nechkin Biochemistry (Moscow) Supplement Series B: Biomedical Chemistry 10, 258-263, 2016 | 18 | 2016 |
| ANANASTRA: annotation and enrichment analysis of allele-specific transcription factor binding at SNPs A Boytsov, S Abramov, AZ Aiusheeva, AM Kasianova, E Baulin, ... Nucleic Acids Research 50 (W1), W51-W56, 2022 | 17 | 2022 |
| Population size estimation for quality control of ChIP-Seq datasets SK Kolmykov, YV Kondrakhin, IS Yevshin, RN Sharipov, AS Ryabova, ... PloS one 14 (8), e0221760, 2019 | 11 | 2019 |
| Disruptive natural selection by male reproductive potential prevents underexpression of protein-coding genes on the human Y chromosome as a self-domestication syndrome M Ponomarenko, M Kleshchev, P Ponomarenko, I Chadaeva, ... BMC genetics 21, 1-17, 2020 | 10 | 2020 |
| Untranslated Region Sequences and the Efficacy of mRNA Vaccines against Tuberculosis V Reshetnikov, I Terenin, G Shepelkova, V Yeremeev, S Kolmykov, ... International Journal of Molecular Sciences 25 (2), 888, 2024 | 9 | 2024 |
| Whole-exome sequencing analysis of human semen quality in Russian multiethnic population S Kolmykov, G Vasiliev, L Osadchuk, M Kleschev, A Osadchuk Frontiers in genetics 12, 662846, 2021 | 8 | 2021 |
| State-of the-art constraint-based modeling of microbial metabolism: from basics to context-specific models with a focus on methanotrophs MA Kulyashov, SK Kolmykov, TM Khlebodarova, IR Akberdin Microorganisms 11 (12), 2987, 2023 | 4 | 2023 |
| Description, characteristic and algorithm for creation of a dictionary of cell types and tissues in the GTRD database MA Kulyashov, SK Kolmykov, IS Evshin, FA Kolpakov CEUR Workshop Proceedings 2569, 13-18, 2020 | 3 | 2020 |
| Meta-analysis of ChIP-seq datasets through the rank aggregation approach SK Kolmykov, YV Kondrakhin, RN Sharipov, IS Yevshi, AS Ryabova, ... 2020 Cognitive Sciences, Genomics and Bioinformatics (CSGB), 180-184, 2020 | 2 | 2020 |
| Cross-platform DNA motif discovery and benchmarking to explore binding specificities of poorly studied human transcription factors IE Vorontsov, I Kozin, S Abramov, A Boytsov, A Jolma, M Albu, ... bioRxiv, 2024.11. 11.619379, 2024 | 1 | 2024 |
| Effects of Various Poly (A) Tails on Luciferase Expression I Kukushkin, O Vasileva, D Kunyk, S Kolmykov, T Sokolova, A Muslimov, ... Biochemistry (Moscow), Supplement Series B: Biomedical Chemistry 18 (3), 263-274, 2024 | 1 | 2024 |
| Statistical framework for calling allelic imbalance in high-throughput sequencing data A Buyan, G Meshcheryakov, V Safronov, S Abramov, A Boytsov, ... bioRxiv, 2023.11. 07.565968, 2023 | 1 | 2023 |
| Peak caller comparison through quality control of ChIP-Seq datasets RN Sharipov, IS Yevshin, YV Kondrakhin, AS Ryabova, SK Kolmykov, ... Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB …, 2020 | 1 | 2020 |
| New method for estimation of number of transcription factor binding sites using results of processing of ChIP-seq data by different peak callers S Kolmykov, Y Kondrakhin, F Kolpakov Systems Biology and Bioinformatics (SBB-2018), 52-52, 2018 | 1 | 2018 |
