Ivan Antonov

Publications¹⁸

• Article Antonov I., O'Loughlin S., Gorohovski A., O'Connor P., Baranov P., Atkins J. Streptomyces rare codon UUA: from features associated with 2 adpA related locations to candidate phage regulatory translational bypassing // RNA Biology. 2023. Vol. 20. No. 1. P. 926-942. doi
• Article Kuznetsov S., Milenkin A., Antonov I. Translational Frameshifting in the chlD Gene Gives a Clue to the Coevolution of the Chlorophyll and Cobalamin Biosyntheses // Microorganisms. 2022. Vol. 10. No. 6. Article 1200. doi
• Chapter Antonov I. Two Cobalt Chelatase Subunits Can Be Generated from a Single chlD Gene via Programed Frameshifting, in: Proceedings of 10th Moscow Conference on Computational Molecular Biology MCCMB'21. M. : IITP RAS, 2021. Ch. 11.
• Article Antonov I., Medvedeva Y. Direct interactions with nascent transcripts is potentially a common targeting mechanism of long non-coding rnas // Genes. 2020. Vol. 11. No. 12. P. 1-11. doi
• Article Ramilowski J., Yip C. W., Agrawal S., Antonov I., Medvedeva Y., Carninci P. Functional annotation of human long noncoding RNAs via molecular phenotyping // Genome Research. 2020. Vol. 30. No. 7. P. 1060-1072. doi
• Article Matveishina E., Antonov I., Medvedeva Y. Practical Guidance in Genome-Wide RNA:DNA Triple Helix Prediction // International Journal of Molecular Sciences. 2020. Vol. 21. No. 3. Article 830. doi
• Article Antonov I. Two Cobalt Chelatase Subunits Can Be Generated from a Single chlD Gene via Programed Frameshifting // Molecular Biology and Evolution. 2020. Vol. 37. No. 8. P. 2268-2278. doi
• Article Antonov I., Mazurov E., Borodovsky M., Medvedeva Y. Prediction of lncRNAs and their interactions with nucleic acids: benchmarking bioinformatics tools // Briefings in Bioinformatics. 2019. Vol. 2. No. 20. P. 551-564. doi
• Article Antonov I., Medvedeva Y. Purine-rich low complexity regions are potential RNA binding hubs in the human genome // F1000Research. 2019. Vol. 7. No. 9. Article 76. doi
• Article Antonov I., Marakhonov A., Zamkova M., Medvedeva Y. ASSA: Fast identification of statistically significant interactions between long RNAs // Journal of Bioinformatics and Computational Biology. 2018. Vol. 16. No. 1. Article 1840001. doi
• Article Marakhonov A., Sadovskaya N., Antonov I., Baranova A., Skoblov M. Analysis of discordant Affymetrix probesets casts serious doubt on idea of microarray data reutilization // BMC Genomics. 2014. Vol. 15. No. 12. P. 1-15. doi
• Article Antonov I., Baranov P., Borodovsky M. GeneTack database: Genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences // Nucleic Acids Research. 2013. Vol. 41. No. D1. P. 152-156. doi
• Article Antonov I., Coakley A., Atkins J., Baranov P., Borodovsky M. Identification of the nature of reading frame transitions observed in prokaryotic genomes // Nucleic Acids Research. 2013. Vol. 41. No. 13. P. 6514-6530. doi
• Article Tang S., Antonov I., Borodovsky M. MetaGeneTack: Ab initio detection of frameshifts in metagenomic sequences // Bioinformatics. 2013. Vol. 29. No. 1. P. 114-116. doi
• Article Sharma V., Firth A., Antonov I., Fayet O., Atkins J., Borodovsky M., Baranov P. A pilot study of bacterial genes with disrupted ORFs reveals a surprising profusion of protein sequence recoding mediated by ribosomal frameshifting and transcriptional realignment // Molecular Biology and Evolution. 2011. Vol. 28. No. 11. P. 3195-3211. doi
• Article Xu J., Linning R., Antonov I., Borodovsky M., Saville B., Bakkeren G. Gene discovery in EST sequences from the wheat leaf rust fungus Puccinia triticina sexual spores, asexual spores and haustoria, compared to other rust and corn smut fungi // BMC Genomics. 2011. Vol. 12. No. 24. Article 161. doi
• Article Jordan K., Conley A., Antonov I., Mayer L. Genome sequences for five strains of the emerging pathogen Haemophilus haemolyticus // Journal of Bacteriology. 2011. Vol. 193. No. 20. P. 5879-5880. doi
• Article Antonov I., Borodovsky M. GeneTack: Frameshift identification in protein-coding sequences by the viterbi algorithm // Journal of Bioinformatics and Computational Biology. 2010. Vol. 8. No. 3. P. 535-551. doi