Zobrazeno 1 - 10
of 28
pro vyhledávání: '"Julia A. Bubis"'
Autor:
Daria S. Spasskaya, Kirill A. Kulagin, Evgenia N. Grineva, Pamila J. Osipova, Svetlana V. Poddubko, Julia A. Bubis, Elizaveta M. Kazakova, Tomiris T. Kusainova, Vladimir A. Gorshkov, Frank Kjeldsen, Vadim L. Karpov, Irina A. Tarasova, Dmitry S. Karpov
Publikováno v:
Journal of Fungi, Vol 9, Iss 3, p 351 (2023)
Various external and internal factors damaging DNA constantly disrupt the stability of the genome. Cells use numerous dedicated DNA repair systems to detect damage and restore genomic integrity in a timely manner. Ribonucleotide reductase (RNR) is a
Externí odkaz:
https://doaj.org/article/1f72b77b8ce941f2bf18f6e03c2c68ae
Autor:
Anastasiya V. Lipatova, Alesya V. Soboleva, Vladimir A. Gorshkov, Julia A. Bubis, Elizaveta M. Solovyeva, George S. Krasnov, Dmitry V. Kochetkov, Pavel O. Vorobyev, Irina Y. Ilina, Sergei A. Moshkovskii, Frank Kjeldsen, Mikhail V. Gorshkov, Peter M. Chumakov, Irina A. Tarasova
Publikováno v:
Cancers, Vol 13, Iss 21, p 5268 (2021)
Oncolytic viruses have gained momentum in the last decades as a promising tool for cancer treatment. Despite the progress, only a fraction of patients show a positive response to viral therapy. One of the key variable factors contributing to therapy
Externí odkaz:
https://doaj.org/article/97c40ff905664ac59bc9aa6d36901984
Autor:
Lev I. Levitsky, Mark V. Ivanov, Anton O. Goncharov, Anna A. Kliuchnikova, Julia A. Bubis, Anna A. Lobas, Elizaveta M. Solovyeva, Mikhail A. Pyatnitskiy, Ruslan K. Ovchinnikov, Mikhail S. Kukharsky, Tatiana E. Farafonova, Svetlana E. Novikova, Victor G. Zgoda, Irina A. Tarasova, Mikhail V. Gorshkov, Sergei A. Moshkovskii
Publikováno v:
Journal of Proteome Research.
The proteogenomic search pipeline developed in this work has been applied for re-analysis of 40 publicly available shotgun proteomic datasets from various human tissues comprising more than 8,000 individual LC-MS/MS runs, of which 5442 .raw data file
Autor:
Elizaveta M. Solovyeva, Julia A. Bubis, Irina A. Tarasova, Anna A. Lobas, Mark V. Ivanov, Alexey A. Nazarov, Ilya A. Shutkov, Mikhail V. Gorshkov
Publikováno v:
Biochemistry. Biokhimiia. 87(11)
Abstract Protein quantitation in tissue cells or physiological fluids based on liquid chromatography/mass spectrometry is one of the key sources of information on the mechanisms of cell functioning during chemotherapeutic treatment. Information on si
Autor:
Mark V. Ivanov, Julia A. Bubis, Vladimir Gorshkov, Irina A. Tarasova, Lev I. Levitsky, Elizaveta M. Solovyeva, Anastasiya V. Lipatova, Frank Kjeldsen, Mikhail V. Gorshkov
Publikováno v:
Analytical chemistry. 94(38)
Recently, we presented the DirectMS1 method of ultrafast proteome-wide analysis based on minute-long LC gradients and MS1-only mass spectra acquisition. Currently, the method provides the depth of human cell proteome coverage of 2500 proteins at 1% f
Autor:
Xiyang Luo, Wout Bittremieux, Johannes Griss, Eric W Deutsch, Timo Sachsenberg, Lev I. Levitsky, Mark V. Ivanov, Julia A. Bubis, Ralf Gabriels, Henry Webel, Aniel Sanchez, Mingze Bai, Lukas Kall, Yasset Perez-Riverol
Publikováno v:
Luo, X, Bittremieux, W, Griss, J, Deutsch, E W, Sachsenberg, T, Levitsky, L I, Ivanov, M V, Bubis, J A, Gabriels, R, Webel, H, Sanchez, A, Bai, M, Käll, L & Perez-Riverol, Y 2022, ' A Comprehensive Evaluation of Consensus Spectrum Generation Methods in Proteomics ', Journal of Proteome Research, vol. 21, no. 6, pp. 1566-1574 . https://doi.org/10.1021/acs.jproteome.2c00069
Spectrum clustering is a powerful strategy to minimize redundant mass spectral data by grouping highly similar mass spectra corresponding to repeatedly measured analytes. Based on spectrum similarity, near-identical spectra are grouped in clusters, a
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1cfeec950c47b1fe9f7746cb9c9940ae
https://doi.org/10.1101/2022.01.25.477699
https://doi.org/10.1101/2022.01.25.477699
Publikováno v:
Bubis, J A, Gorshkov, V, Billing, A M & Kjeldsen, F 2020, ' HUMOS : How to Understand My Orbitrap Spectrum?-An interactive web-based tool to teach the basics of mass spectrometry-based proteomics ', Journal of proteome research, vol. 19, no. 10, pp. 3910-3918 . https://doi.org/10.1021/acs.jproteome.0c00395
The Orbitrap mass analyzer can provide high mass accuracy and throughput, which has significantly improved proteome research and made this type of instrumentation one of the most frequently applied in proteomics. The efficient use of Orbitrap mass sp
Autor:
Frank Kjeldsen, Dmitry S. Karpov, Mikhail V. Gorshkov, Irina A. Tarasova, Daria S. Spasskaya, Aleksandra M. Kofanova, Julia A. Bubis, Vladimir Gorshkov, Vadim L. Karpov, Dmitry S. Lekanov
Publikováno v:
Applied Microbiology and Biotechnology
Bubis, J A, Spasskaya, D S, Gorshkov, V A, Kjeldsen, F, Kofanova, A M, Lekanov, D S, Gorshkov, M V, Karpov, V L, Tarasova, I A & Karpov, D S 2020, ' Rpn4 and proteasome-mediated yeast resistance to ethanol includes regulation of autophagy ', Applied Microbiology and Biotechnology, vol. 104, no. 9, pp. 4027-4041 . https://doi.org/10.1007/s00253-020-10518-x
Bubis, J A, Spasskaya, D S, Gorshkov, V A, Kjeldsen, F, Kofanova, A M, Lekanov, D S, Gorshkov, M V, Karpov, V L, Tarasova, I A & Karpov, D S 2020, ' Rpn4 and proteasome-mediated yeast resistance to ethanol includes regulation of autophagy ', Applied Microbiology and Biotechnology, vol. 104, no. 9, pp. 4027-4041 . https://doi.org/10.1007/s00253-020-10518-x
Distilled spirits production using Saccharomyces cerevisiae requires understanding of the mechanisms of yeast cell response to alcohol stress. Reportedly, specific mutations in genes of the ubiquitin-proteasome system, e.g., RPN4, may result in strai
Autor:
Irina Y. Ilina, Dmitry V. Kochetkov, Elizaveta M. Solovyeva, Irina A. Tarasova, Peter M. Chumakov, Alesya V. Soboleva, Pavel Olegovich Vorobyev, Vladimir Gorshkov, George S. Krasnov, Julia A. Bubis, Mikhail V. Gorshkov, Anastasiya V. Lipatova, Sergei A. Moshkovskii, Frank Kjeldsen
Publikováno v:
Cancers
Volume 13
Issue 21
Lipatova, A V, Soboleva, A V, Gorshkov, V A, Bubis, J A, Solovyeva, E M, Krasnov, G S, Kochetkov, D V, Vorobyev, P O, Ilina, I Y, Moshkovskii, S A, Kjeldsen, F, Gorshkov, M V, Chumakov, P M & Tarasova, I A 2021, ' Multi-omics analysis of glioblastoma cells’ sensitivity to oncolytic viruses ', Cancers, vol. 13, no. 21, 5268 . https://doi.org/10.3390/cancers13215268
Cancers, Vol 13, Iss 5268, p 5268 (2021)
Volume 13
Issue 21
Lipatova, A V, Soboleva, A V, Gorshkov, V A, Bubis, J A, Solovyeva, E M, Krasnov, G S, Kochetkov, D V, Vorobyev, P O, Ilina, I Y, Moshkovskii, S A, Kjeldsen, F, Gorshkov, M V, Chumakov, P M & Tarasova, I A 2021, ' Multi-omics analysis of glioblastoma cells’ sensitivity to oncolytic viruses ', Cancers, vol. 13, no. 21, 5268 . https://doi.org/10.3390/cancers13215268
Cancers, Vol 13, Iss 5268, p 5268 (2021)
Simple Summary This study aims to uncover the contribution of interferon-dependent antiviral mechanisms preserved in tumor cells to the resistance of glioblastoma multiforme cells to oncolytic viruses. To characterize the functionality of interferon
Autor:
Elizaveta M. Kazakova, Elizaveta M. Solovyeva, Lev I. Levitsky, Julia A. Bubis, Daria D. Emekeeva, Anastasia A. Antonets, Alexey A. Nazarov, Mikhail V. Gorshkov, Irina A. Tarasova
Publikováno v:
PROTEOMICS. 23:2200275
Omics technologies focus on uncovering the complex nature of molecular mechanisms in cells and organisms, including biomarkers and drug targets discovery. Aiming at these tasks, we see that information extracted from omics data is still underused. In