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Публикации за 2013
RNASurface: fast and accurate detection of locally optimal potentially structured RNA segments. Soldatov, R. A.; Vinogradova, S. V.; Mironov, A. A. Bioinformatics. 2013 Dec 27. PubMed; doi 10.1093/bioinformatics/btt701
Structural basis for the regulatory function of a complex zinc-binding domain in a replicative arterivirus helicase resembling a nonsense-mediated mRNA decay helicase. Deng, Z.; Lehmann, K. C.; Li, X.; Feng, C.; Wang, G.; Zhang, Q.; Qi, X.; Yu, L.; Zhang, X.; Feng, W.; Wu, W.; Gong, P.; Tao, Y.; Posthuma, C. C.; Snijder, E. J.; Gorbalenya, A. E.; Chen, Z. Nucleic Acids Res. 2013 Dec 24. PubMed; doi 10.1093/nar/gkt1310
Thiamin-dependent enzymes: new perspectives from the interface between chemistry and biology. Bunik, V. I. FEBS J. 2013 Dec;280(24):6373. PubMed; doi 10.1111/febs.12589
Thiamin diphosphate-dependent enzymes: from enzymology to metabolic regulation, drug design and disease models. Bunik, V. I.; Tylicki, A.; Lukashev, N. V. FEBS J. 2013 Dec;280(24):6412-42. PubMed; doi 10.1111/febs.12512
Thermo-switchable activity of the restriction endonuclease SsoII achieved by site-directed enzyme modification. Abrosimova, L. A.; Monakhova, M. V.; Migur, A. Y.; Wolfgang, W.; Pingoud, A.; Kubareva, E. A.; Oretskaya, T. S. IUBMB Life. 2013 Dec;65(12):1012-6. PubMed; doi 10.1002/iub.1222
Method for site-specific detection of m6A nucleoside presence in RNA based on high-resolution melting (HRM) analysis. Golovina, A. Y.; Dzama, M. M.; Petriukov, K. S.; Zatsepin, T. S.; Sergiev, P. V.; Bogdanov, A. A.; Dontsova, O. A. Nucleic Acids Res. 2013 Nov 21. PubMed; doi 10.1093/nar/gkt1160
Genome sequence analysis indicates that the model eukaryote Nematostella vectensis harbors bacterial consorts. Artamonova, I. I.; Mushegian, A. R. Appl Environ Microbiol. 2013 Nov;79(22):6868-73. PubMed; doi 10.1128/AEM.01635-13
Evolution of cytochrome bc complexes: from membrane-anchored dehydrogenases of ancient bacteria to triggers of apoptosis in vertebrates. Dibrova, D. V.; Cherepanov, D. A.; Galperin, M. Y.; Skulachev, V. P.; Mulkidjanian, A. Y. Biochim Biophys Acta. 2013 Nov-Dec;1827(11-12):1407-27. PubMed; doi 10.1016/j.bbabio.2013.07.006
Aptamer RA36 inhibits of human, rabbit, and rat plasma coagulation activated with thrombin or snake venom coagulases. Savchik, E. Y.; Kalinina, T. B.; Drozd, N. N.; Makarov, V. A.; Zav'yalova, E. G.; Lapsheva, E. N.; Mudrik, N. N.; Babij, A. V.; Pavlova, G. V.; Golovin, A. V.; Kopylov, A. M. Bull Exp Biol Med. 2013 Nov;156(1):44-8. PubMed
Polyreactive monoclonal autoantibodies in multiple sclerosis: functional selection from phage display library and characterization by deep sequencing analysis. Lomakin, Y. A.; Zakharova, M. Y.; Belogurov, A. A.; Bykova, N. A.; Dronina, M. A.; Tupikin, A. E.; Knorre, V. D.; Boyko, A. N.; Favorov, A. V.; Kabilov, M. R.; Ponomarenko, N. A.; Gabibov, G. Acta Naturae. 2013 Oct;5(4):94-104. PubMed
Effect of poly(phosphate) anions on glyceraldehyde-3-phosphate dehydrogenase structure and thermal aggregation: comparison with influence of poly(sulfoanions). Semenyuk, P. I.; Muronetz, V. I.; Haertle, T.; Izumrudov, V. A. Biochim Biophys Acta. 2013 Oct;1830(10):4800-5. PubMed; doi 10.1016/j.bbagen.2013.06.024
Minimal genome encoding proteins with constrained amino acid repertoire. Tsoy, O.; Yurieva, M.; Kucharavy, A.; O'Reilly, M.; Mushegian, A. Nucleic Acids Res. 2013 Oct;41(18):8444-51. PubMed; doi 10.1093/nar/gkt610
Paratrypanosoma is a novel early-branching trypanosomatid. Flegontov, P.; Votypka, J.; Skalicky, T.; Logacheva, M. D.; Penin, A. A.; Tanifuji, G.; Onodera, N. T.; Kondrashov, A. S.; Volf, P.; Archibald, J. M.; Lukes, J. Curr Biol. 2013 Sep 23;23(18):1787-93. PubMed; doi 10.1016/j.cub.2013.07.045
Zebra: a web server for bioinformatic analysis of diverse protein families. Suplatov, D.; Kirilin, E.; Takhaveev, V.; Svedas, V. J Biomol Struct Dyn. 2013 Sep 13. PubMed; doi 10.1080/07391102.2013.834514
Short indels are subject to insertion-biased gene conversion. Leushkin, E. V.; Bazykin, G. A. Evolution. 2013 Sep;67(9):2604-13. PubMed; doi 10.1111/evo.12129
Functional implications of splicing polymorphisms in the human genome. Kurmangaliyev, Y. Z.; Sutormin, R. A.; Naumenko, S. A.; Bazykin, G. A.; Gelfand, M. S. Hum Mol Genet. 2013 Sep 1;22(17):3449-59. PubMed; doi 10.1093/hmg/ddt200
Role of charge screening and delocalization for lipophilic cation permeability of model and mitochondrial membranes. Trendeleva, T. A.; Sukhanova, E. I.; Rogov, A. G.; Zvyagilskaya, R. A.; Seveina, I. I.; Ilyasova, T. M.; Cherepanov, D. A.; Skulachev, V. P. Mitochondrion. 2013 Sep;13(5):500-6. PubMed; doi 10.1016/j.mito.2012.10.006
Derivatives of the cationic plant alkaloids berberine and palmatine amplify protonophorous activity of fatty acids in model membranes and mitochondria. Pustovidko, A. V.; Rokitskaya, T. I.; Severina, I. I.; Simonyan, R. A.; Trendeleva, T. A.; Lyamzaev, K. G.; Antonenko, Y. N.; Rogov, A. G.; Zvyagilskaya, R. A.; Skulachev, V. P.; Chernyak, B. V. Mitochondrion. 2013 Sep;13(5):520-5. PubMed; doi 10.1016/j.mito.2012.09.006
Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga. Flot, J. F.; Hespeels, B.; Li, X.; Noel, B.; Arkhipova, I.; Danchin, E. G.; Hejnol, A.; Henrissat, B.; Koszul, R.; Aury, J. M.; Barbe, V.; Barthelemy, R. M.; Bast, J.; Bazykin, G. A.; Chabrol, O.; Couloux, A.; Da Rocha, M.; Da Silva, C.; Gladyshev, E.; Gouret, P.; Hallatschek, O.; Hecox-Lea, B.; Labadie, K.; Lejeune, B.; Piskurek, O.; Poulain, J.; Rodriguez, F.; Ryan, J. F.; Vakhrusheva, O. A.; Wajnberg, E.; Wirth, B.; Yushenova, I.; Kellis, M.; Kondrashov, A. S.; Mark Welch, D. B.; Pontarotti, P.; Weissenbach, J.; Wincker, P.; Jaillon, O.; Van Doninck, K. Nature. 2013 Aug 22;500(7463):453-7. PubMed; doi 10.1038/nature12326
Protective effect of mitochondria-targeted antioxidants in an acute bacterial infection. Plotnikov, E. Y.; Morosanova, M. A.; Pevzner, I. B.; Zorova, L. D.; Manskikh, V. N.; Pulkova, N. V.; Galkina, S. I.; Skulachev, V. P.; Zorov, D. B. Proc Natl Acad Sci U S A. 2013 Aug 13;110(33):E3100-8. PubMed; doi 10.1073/pnas.1307096110
Structure-based design of small-molecule ligands of phosphofructokinase-2 activating or inhibiting glycolysis. Pyrkov, T. V.; Sevostyanova, I. A.; Schmalhausen, E. V.; Shkoporov, A. N.; Vinnik, A. A.; Muronetz, V. I.; Severin, F. F.; Fedichev, P. O. ChemMedChem. 2013 Aug;8(8):1322-9. PubMed; doi 10.1002/cmdc.201300154
The miniature genome of a carnivorous plant Genlisea aurea contains a low number of genes and short non-coding sequences. Leushkin, E. V.; Sutormin, R. A.; Nabieva, E. R.; Penin, A. A.; Kondrashov, A. S.; Logacheva, M. D. BMC Genomics. 2013 Jul 15;14(1):476. PubMed; doi 10.1186/1471-2164-14-476
Image-based analysis of lipid nanoparticle-mediated siRNA delivery, intracellular trafficking and endosomal escape. Gilleron, J.; Querbes, W.; Zeigerer, A.; Borodovsky, A.; Marsico, G.; Schubert, U.; Manygoats, K.; Seifert, S.; Andree, C.; Stoter, M.; Epstein-Barash, H.; Zhang, L.; Koteliansky, V.; Fitzgerald, K.; Fava, E.; Bickle, M.; Kalaidzidis, Y.; Akinc, A.; Maier, M.; Zerial, M. Nat Biotechnol. 2013 Jul;31(7):638-46. PubMed; doi 10.1038/nbt.2612
In search of novel highly active mitochondria-targeted antioxidants: thymoquinone and its cationic derivatives. Severina, I. I.; Severin, F. F.; Korshunova, G. A.; Sumbatyan, N. V.; Ilyasova, T. M.; Simonyan, R. A.; Rogov, A. G.; Trendeleva, T. A.; Zvyagilskaya, R. A.; Dugina, V. B.; Domnina, L. V.; Fetisova, E. K.; Lyamzaev, K. G.; Vyssokikh, M. Y.; Chernyak, B. V.; Skulachev, M. V.; Skulachev, V. P.; Sadovnichii, V. A. FEBS Lett. 2013 Jun 27;587(13):2018-24. PubMed; doi 10.1016/j.febslet.2013.04.043
Hidden Markov models for evolution and comparative genomics analysis. Bykova, N. A.; Favorov, A. V.; Mironov, A. A. PLoS One. 2013 Jun 7;8(6):e65012. PubMed; doi 10.1371/journal.pone.0065012
Electrogenic proton transport across lipid bilayer membranes mediated by cationic derivatives of rhodamine 19: comparison with anionic protonophores. Rokitskaya, T. I.; Ilyasova, T. M.; Severina, I. I.; Antonenko, Y. N.; Skulachev, V. P. Eur Biophys J. 2013 Jun;42(6):477-85. PubMed; doi 10.1007/s00249-013-0898-9
Mitochondrial signaling in Saccharomyces cerevisiae pseudohyphae formation induced by butanol. Starovoytova, A. N.; Sorokin, M. I.; Sokolov, S. S.; Severin, F. F.; Knorre, D. A. FEMS Yeast Res. 2013 Jun;13(4):367-74. PubMed; doi 10.1111/1567-1364.12039
Evolution of pan-genomes of Escherichia coli, Shigella spp., and Salmonella enterica. Gordienko, E. N.; Kazanov, M. D.; Gelfand, M. S. J Bacteriol. 2013 Jun;195(12):2786-92. PubMed; doi 10.1128/JB.02285-12
Prevalence of multinucleotide replacements in evolution of primates and Drosophila. Terekhanova, N. V.; Bazykin, G. A.; Neverov, A.; Kondrashov, A. S.; Seplyarskiy, V. B. Mol Biol Evol. 2013 Jun;30(6):1315-25. PubMed; doi 10.1093/molbev/mst036
Penetrating cations enhance uncoupling activity of anionic protonophores in mitochondria. Antonenko, Y. N.; Khailova, L. S.; Knorre, D. A.; Markova, O. V.; Rokitskaya, T. I.; Ilyasova, T. M.; Severina, I. I.; Kotova, E. A.; Karavaeva, Y. E.; Prikhodko, A. S.; Severin, F. F.; Skulachev, V. P. PLoS One. 2013 Apr 23;8(4):e61902. PubMed; doi 10.1371/journal.pone.0061902
Structural lability of Barley stripe mosaic virus virions. Makarov, V. V.; Skurat, E. V.; Semenyuk, P. I.; Abashkin, D. A.; Kalinina, N. O.; Arutyunyan, A. M.; Solovyev, A. G.; Dobrov, E. N. PLoS One. 2013 Apr 17;8(4):e60942. PubMed; doi 10.1371/journal.pone.0060942
RegTransBase--a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes. Cipriano, M. J.; Novichkov, P. N.; Kazakov, A. E.; Rodionov, D. A.; Arkin, A. P.; Gelfand, M. S.; Dubchak, I. BMC Genomics. 2013 Apr 2;14:213. PubMed; doi 10.1186/1471-2164-14-213
Mitochondrially-encoded protein Var1 promotes loss of respiratory function in Saccharomyces cerevisiae under stressful conditions. Litvinchuk, A. V.; Sokolov, S. S.; Rogov, A. G.; Markova, O. V.; Knorre, D. A.; Severin, F. F. Eur J Cell Biol. 2013 Apr-May;92(4-5):169-74. PubMed; doi 10.1016/j.ejcb.2013.02.001
Collateral presentation of antigens as physiological prototype for lymph node metastases. Manskikh, V. N.; Perelmuter, V. M. Biochemistry (Mosc). 2013 Mar;78(3):314-23. PubMed; doi 10.1134/S0006297913030152
[Statistical methods of comparative genomic analysis based on diffusion processes]. Soldatov, R. A.; Mironov, A. A. Biofizika. 2013 Mar-Apr;58(2):203-9. PubMed
Evolution of cell division: from shear mechanics to complex molecular machineries. Koonin, E. V.; Mulkidjanian, A. Y. Cell. 2013 Feb 28;152(5):942-4. PubMed; doi 10.1016/j.cell.2013.02.008
Improving the dispersity of detonation nanodiamond: differential scanning calorimetry as a new method of controlling the aggregation state of nanodiamond powders. Korobov, M. V.; Volkov, D. S.; Avramenko, N. V.; Belyaeva, L. A.; Semenyuk, P. I.; Proskurnin, M. A. Nanoscale. 2013 Feb 21;5(4):1529-36. PubMed; doi 10.1039/c2nr33512c
On the role of the mitochondrial 2-oxoglutarate dehydrogenase complex in amino acid metabolism. Araujo, W. L.; Trofimova, L.; Mkrtchyan, G.; Steinhauser, D.; Krall, L.; Graf, A.; Fernie, A. R.; Bunik, V. I. Amino Acids. 2013 Feb;44(2):683-700. PubMed; doi 10.1007/s00726-012-1392-x
Dynamics of bioenergetic microcompartments. Busch, K. B.; Deckers-Hebestreit, G.; Hanke, G. T.; Mulkidjanian, A. Y. Biol Chem. 2013 Feb;394(2):163-88. PubMed; doi 10.1515/hsz-2012-0254
Intron-centric estimation of alternative splicing from RNA-seq data. Pervouchine, D. D.; Knowles, D. G.; Guigo, R. Bioinformatics. 2013 Jan 15;29(2):273-4. PubMed; doi 10.1093/bioinformatics/bts678
Comparative analysis of context-dependent mutagenesis using human and mouse models. Medvedeva, S. A.; Panchin, A. Y.; Alexeevski, A. V.; Spirin, S. A.; Panchin, Y. V. Biomed Res Int. 2013;2013:989410. PubMed; doi 10.1155/2013/989410
Molecular modeling of different substrate-binding modes and their role in penicillin acylase catalysis. Novikov, F. N.; Stroganov, O. V.; Khaliullin, I. G.; Panin, N. V.; Shapovalova, I. V.; Chilov, G. G.; Svedas, V. K. FEBS J. 2013 Jan;280(1):115-26. PubMed; doi 10.1111/febs.12054
Genome-Level Analysis of Selective Constraint without Apparent Sequence Conservation. Vakhrusheva, O. A.; Bazykin, G. A.; Kondrashov, A. S. Genome Biol Evol. 2013;5(3):532-41. PubMed; doi 10.1093/gbe/evt023
Strong mutational bias toward deletions in the Drosophila melanogaster genome is compensated by selection. Leushkin, E. V.; Bazykin, G. A.; Kondrashov, A. S. Genome Biol Evol. 2013;5(3):514-24. PubMed; doi 10.1093/gbe/evt021
Up-regulation of 2-oxoglutarate dehydrogenase as a stress response. Graf, A.; Trofimova, L.; Loshinskaja, A.; Mkrtchyan, G.; Strokina, A.; Lovat, M.; Tylicky, A.; Strumilo, S.; Bettendorff, L.; Bunik, V. I. Int J Biochem Cell Biol. 2013 Jan;45(1):175-89. PubMed; doi 10.1016/j.biocel.2012.07.002
Comparative analysis of context-dependent mutagenesis in humans and fruit flies. Medvedeva, S. A.; Panchin, A. Y.; Alexeevski, A. V.; Spirin, S. A.; Panchin, Y. V. Int J Genomics. 2013;2013:173616. PubMed; doi 10.1155/2013/173616
Evolution of the protein stoichiometry in the L12 stalk of bacterial and organellar ribosomes. Davydov, I. I.; Wohlgemuth, I.; Artamonova, I. I.; Urlaub, H.; Tonevitsky, A. G.; Rodnina, M. V. Nat Commun. 2013;4:1387. PubMed; doi 10.1038/ncomms2373
NPIDB: Nucleic acid-Protein Interaction DataBase. Kirsanov, D. D.; Zanegina, O. N.; Aksianov, E. A.; Spirin, S. A.; Karyagina, A. S.; Alexeevski, A. V. Nucleic Acids Res. 2013 Jan;41(Database issue):D517-23. PubMed; doi 10.1093/nar/gks1199
Base-calling algorithm with vocabulary (BCV) method for analyzing population sequencing chromatograms. Fantin, Y. S.; Neverov, A. D.; Favorov, A. V.; Alvarez-Figueroa, M. V.; Braslavskaya, S. I.; Gordukova, M. A.; Karandashova, I. V.; Kuleshov, K. V.; Myznikova, A. I.; Polishchuk, M. S.; Reshetov, D. A.; Voiciehovskaya, Y. A.; Mironov, A. A.; Chulanov, V. P. PLoS One. 2013;8(1):e54835. PubMed; doi 10.1371/journal.pone.0054835
версия для печати

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Лекторий МГУ
21 февраля 2020 г. Тема: «Старение и анти-старение: две противоположные биологические программы, определяющие продолжительность жизни»
Владимир Петрович Скулачев


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