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K.G. Kuznetsova, J. Vašíček, D. Skiadopoulou, J. Molnes, M. Udler, S. Johansson, P.R. Njølstad, A. Manning, M. Vaudel, Bioinformatics pipeline for the systematic mining genomic and proteomic variation linked to rare diseases: The example of monogenic diabetes, PLOS ONE 19 (2024) e0300350. https://doi.org/10.1371/journal.pone.0300350.

J. Vašíček, D. Skiadopoulou, K.G. Kuznetsova, B. Wen, S. Johansson, P.R. Njølstad, S. Bruckner, L. Käll, M. Vaudel, Finding haplotypic signatures in proteins, GigaScience. 12 (2023) giad093. https://doi.org/10.1093/gigascience/giad093.

D. Skiadopoulou, J. Vašíček, K. Kuznetsova, D. Bouyssié, L. Käll, M. Vaudel, Retention Time and Fragmentation Predictors Increase Confidence in Identification of Common Variant Peptides, J. Proteome Res. (2023). https://doi.org/10.1021/acs.jproteome.3c00243.

A.S. Nikitina, A.V. Lipatova, A.O. Goncharov, A.A. Kliuchnikova, M.A. Pyatnitskiy, K.G. Kuznetsova, A. Hamad, P.O. Vorobyev, O.N. Alekseeva, M. Mahmoud, Y. Shakiba, K.S. Anufrieva, G.P. Arapidi, M.V. Ivanov, I.A. Tarasova, M.V. Gorshkov, P.M. Chumakov, S.A. Moshkovskii, Multiomic Profiling Identified EGF Receptor Signaling as a Potential Inhibitor of Type I Interferon Response in Models of Oncolytic Therapy by Vesicular Stomatitis Virus, Int. J. Mol. Sci. 23 (2022) 5244. https://doi.org/10.3390/ijms23095244.

S.S. Nasaev, A.S. Kopeykina, K.G. Kuznetsova, L.I. Levitsky, S.A. Moshkovskii, Proteomic Analysis of Zebrafish Protein Recoding via mRNA Editing by ADAR Enzymes, Biochem. Mosc. 87 (2022) 1301–1309. https://doi.org/10.1134/S0006297922110098.

L.I. Levitsky, K.G. Kuznetsova, A.A. Kliuchnikova, I.Y. Ilina, A.O. Goncharov, A.A. Lobas, M.V. Ivanov, V.N. Lazarev, R.H. Ziganshin, M.V. Gorshkov, S.A. Moshkovskii, Validating Amino Acid Variants in Proteogenomics Using Sequence Coverage by Multiple Reads, J. Proteome Res. (2022). https://doi.org/10.1021/acs.jproteome.2c00033.

K.G. Kuznetsova, S.S. Zvonareva, R. Ziganshin, E.S. Mekhova, P. Dgebuadze, D.T.H. Yen, T.H.T. Nguyen, S.A. Moshkovskii, A.E. Fedosov, Vexitoxins: conotoxin-like venom peptides from predatory gastropods of the genus Vexillum, Proc. R. Soc. B Biol. Sci. 289 (2022) 20221152. https://doi.org/10.1098/rspb.2022.1152.

A.O. Goncharov, V.O. Shender, K.G. Kuznetsova, A.A. Kliuchnikova, S.A. Moshkovskii, Interplay between A-to-I Editing and Splicing of RNA: A Potential Point of Application for Cancer Therapy, Int. J. Mol. Sci. 23 (2022) 5240. https://doi.org/10.3390/ijms23095240.

M.I. Degtyarev, I.M. Lebedev, K.G. Kuznetsova, R.A. Saifutdinov, K.B. Gongalsky, D.I. Korobushkin, Enchytraeidae (Annelida: Oligochaeta) from Eastern Dagestan, Russia, with the description of a new species, 5094 (2022) 331–340.

K.G. Kuznetsova, L.I. Levitsky, M.A. Pyatnitskiy, I.Y. Ilina, J.A. Bubis, E.M. Solovyeva, V.G. Zgoda, M. V. Gorshkov, S.A. Moshkovskii, Cysteine alkylation methods in shotgun proteomics and their possible effects on methionine residues, Journal of Proteomics. 231 (2021) 104022. doi:10.1016/j.jprot.2020.104022.

A.A. Kliuchnikova, A.O. Goncharov, L.I. Levitsky, M.A. Pyatnitskiy, S.E. Novikova, K.G. Kuznetsova, M. V. Ivanov, I.Y. Ilina, T.E. Farafonova, V.G. Zgoda, M. V. Gorshkov, S.A. Moshkovskii, Proteome-Wide Analysis of ADAR-Mediated Messenger RNA Editing during Fruit Fly Ontogeny, Journal of Proteome Research. 19 (2020) 4046–4060. doi:10.1021/ acs.jproteome.0c00347.

K.G. Kuznetsova, E.M. Solovyeva, A.V. Kuzikov, M.V. Gorshkov, S.A. Moshkovskii, Modification of cysteine residues for mass spectrometry-based proteomic analysis: facts and artifacts, Biochemistry(Moscow) Supplement Series B Biomedical Chemistry. 66 (2020) 18– 29. doi:10.18097/pbmc20206601018.

M.I. Degtyarev, I.M. Lebedev, K.G. Kuznetsova, K.B. Gongalsky, A history of study and new records of terrestrial enchytraeids (Annelida, Clitellata, Enchytraeidae) from the Russian Far East, Zookeys. 955 (2020) 79–96. doi:10.3897/zookeys.955.53106.

L.I. Levitsky, A.A. Kliuchnikova, K.G. Kuznetsova, D.S. Karpov, M. V. Ivanov, M.A. Pyatnitskiy, O. V. Kalinina, M. V. Gorshkov, S.A. Moshkovskii, Adenosine-to-Inosine RNA Editing in Mouse and Human Brain Proteomes, Proteomics. 19 (2019) 1–13. doi:10.1002/ pmic.201900195.

E. Ilgisonis, O. Kiseleva, K. Kuznetsova, Math, science, history, unraveling the mystery—That all started with de novo!, EuPA Open Proteomics. (2019). https://doi.org/10.1016/j.euprot.2019.07.011.

K.G. Kuznetsova, M. V Ivanov, M.A. Pyatnitskiy, L.I. Levitsky, I.Y. Ilina, A.L. Chernobrovkin, R.A. Zubarev, M. V Gorhskov, S.A. Moshkovskii, Brain Proteome of Drosophila melanogaster Is Enriched with Nuclear Proteins, Biochemistry(Moscow). 84 (2019) 71–78. doi:10.1134/s0006297919010097.

K.G. Kuznetsova, A.A. Kliuchnikova, I.U. Ilina, A.L. Chernobrovkin, S.E. Novikova, T.E. Farafonova, D.S. Karpov, M. V Ivanov, A.O. Goncharov, E. V Ilgisonis, O.E. Voronko, S.S. Nasaev, V.G. Zgoda, R.A. Zubarev, M. V Gorshkov, S.A. Moshkovskii, Proteogenomics of Adenosine-to-Inosine RNA Editing in the Fruit Fly, Journal of Proteome Research. 17 (2018) 3889–3903. doi:10.1021/acs.jproteome.8b00553.

A.A. Lobas, M.A. Pyatnitskiy, A.L. Chernobrovkin, I.Y. Ilina, D.S. Karpov, E.M. Solovyeva, K.G. Kuznetsova, M. V. Ivanov, E.Y. Lyssuk, A.A. Kliuchnikova, O.E. Voronko, S.S. Larin, R.A. Zubarev, M. V. Gorshkov, S.A. Moshkovskii, Proteogenomics of Malignant Melanoma Cell Lines: The Effect of Stringency of Exome Data Filtering on Variant Peptide Identification in Shotgun Proteomics, Journal of Proteome Research. 17 (2018) 1801–1811. doi:10.1021/ acs.jproteome.7b00841.

S.A. Moshkovskii, M. V Ivanov, K.G. Kuznetsova, M. V Gorshkov, Identification of Single Amino Acid Substitutions in Proteogenomics, Biochemistry(Moscow). 83 (2018) 250–258. doi:10.1134/S0006297918030057.

K.G. Kuznetsova, P. V Trufanov, A.A. Moysa, M.A. Pyatnitskiy, V.G. Zgoda, M. V Gorshkov, S.A. Moshkovskii, Threonine versus isothreonine in synthetic peptides analyzed by high-resolution liquid chromatography/tandem mass spectrometry, Rapid Communication in Mass Spectrometry 30 (2016) 1323–1331. doi:10.1002/rcm.7566.

A.A. Kliuchnikova, K.G. Kuznetsova, S.A. Moshkovskii, ADAR-mediated messenger RNA editing: analysis at the proteome level, Biochemistry(Moscow) Supplement Series B Biomedical Chemistry. 62 (2016) 510–519. doi:10.18097/pbmc20166205510.

A.A. Kliuchnikova, N.I. Samokhina, I.Y. Ilina, D.S. Karpov, M.A. Pyatnitskiy, K.G. Kuznetsova, I.Y. Toropygin, S.A. Kochergin, I.B. Alekseev, V.G. Zgoda, A.I. Archakov, S.A. Moshkovskii, Human aqueous humor proteome in cataract, glaucoma and pseudoexfoliation syndrome, Proteomics. (2016) 1938–1946. doi:10.1002/pmic.201500423.

A.A. Lobas, D.S. Karpov, A.T. Kopylov, E.M. Solovyeva, M. V Ivanov, I.I. Ilina, V.N. Lazarev, K.G. Kuznetsova, E. V Ilgisonis, V.G. Zgoda, M. V Gorshkov, S.A. Moshkovskii, Exome- based proteogenomics of HEK-293 human cell line: Coding genomic variants identified at the level of shotgun proteome., Proteomics. 16 (2016) 1980–91. doi:10.1002/pmic.201500349.

A.L. Chernobrovkin, A.T. Kopylov, V.G. Zgoda, A.A. Moysa, M.A. Pyatnitskiy, K.G. Kuznetsova, I.Y. Ilina, M.A. Karpova, D.S. Karpov, A. V Veselovsky, M. V Ivanov, M. V Gorshkov, A.I. Archakov, S.A. Moshkovskii, Methionine to isothreonine conversion as a source of false discovery identifications of genetically encoded variants in proteogenomics, Journal of Proteomics. 120 (2015) 169–178. doi:10.1016/j.jprot.2015.03.003.

A. Polyakova, K. Kuznetsova, S. Moshkovskii, Proteogenomics meets cancer immunology: mass spectrometric discovery and analysis of neoantigens., Expert Reviews in Proteomics. 12 (2015) 533–541. doi:10.1586/14789450.2015.1070100.

A.E. Fedosov, S.A. Moshkovskii, K.G. Kuznetsova, B.M. Olivera, Conotoxins: From the biodiversity of gastropods to new drugs, Biochemistry(Moscow) Supplement Series B Biomedical Chemistry. 6 (2012) 107–122. doi:10.1134/S1990750812020059.

N.M. Biserova, K.G. Kuznetsova, Head sensory organs of Halobiotus stenostomus (Eutardigrada, Hypsibiidae), Biol. Bull. 39 (2012) 579–589. doi:10.1134/S1062359012070035.