?
SARS-CoV-2 Omicron Outbreak in a Dormitory in Saint-Petersburg, Russia
Research Square Company
,
2022.
Bazykin G., Danilenko D., Komissarov A., Yolshin N., Shneider O., Nabieva E., Klink G., Shvyrev N., Konovalova N., Zheltukhina A., Fadeev A., Komissarova K., Ksenafontov A., Musaeva T., Eder V., Shchur V., Lioznov D.
Priority areas:
IT and mathematics
Language:
English
Shchur V., Spirin V., Pokrovskiy V. et al., / Cold Spring Harbor Laboratory. Series 005140 "Medrxiv". 2021.
As an effort to help contain the COVID-19 pandemic, large numbers of SARS-CoV-2 genomes have been sequenced from all continents. More than one million viral sequences are publicly available as of April 2021. Many studies estimate viral genealogies from these sequences, as these can provide valuable information about the spread of the pandemic across time ...
Added: April 27, 2021
Klink G. V., Safina K. R., Nabieva E. et al., / Cold Spring Harbor Laboratory. Series 005140 "Medrxiv". 2021.
Background Delta has outcompeted most preexisting variants of SARS-CoV-2, becoming the globally predominant lineage by mid-2021. Its subsequent evolution has led to emergence of multiple sublineages, many of which are well-mixed between countries.
Aim Here, we aim to study the emergence and spread of the Delta lineage in Russia.
Methods We use a phylogeographic approach to infer imports of Delta ...
Added: December 6, 2021
Komissarov A. B., Safina K. R., Garushyants S. K. et al., / Cold Spring Harbor Laboratory. Series 005140 "Medrxiv". 2020.
The ongoing pandemic of SARS-CoV-2 presents novel challenges and opportunities for the use of phylogenetics to understand and control its spread. Here, we analyze the emergence of SARS-CoV-2 in Russia in March and April 2020. Combining phylogeographic analysis with travel history data, we estimate that the sampled viral diversity has originated from 67 closely timed ...
Added: July 17, 2020
Knyazev E. N., Kalinin R. S., Abrikosova V. A. et al., Bulletin of Experimental Biology and Medicine 2023 Vol. 175 No. 1 P. 150-156
We studied the effect of KDM5 family demethylase inhibitors (JIB-04, PBIT, and KDOAM-25) on the penetration of SARS-CoV-2 pseudotyped viruses into differentiated Caco-2 cells and HEK293T cells with ACE2 hyperexpression. The above drugs were not cytotoxic. Only KDOAM-25 significantly reduced virus entry into the cells. The expression of ACE2 mRNA in Caco-2 significantly increased, while TMPRSS2 expression did not significantly change ...
Added: June 22, 2023
Nersisyan S., Engibaryan N., Gorbonos A. et al., PeerJ 2020 Vol. 8 Article e9994
Host miRNAs are known as important regulators of virus replication and pathogenesis. They can interact with various viruses through several possible mechanisms including direct binding of viral RNA. Identification of human miRNAs involved in coronavirus-host interplay becomes important due to the ongoing COVID-19 pandemic. In this article we performed computational prediction of high-confidence direct interactions ...
Added: September 17, 2020
Knyazev E., Nersisyan S., Tonevitsky A., Frontiers in Immunology 2021 Vol. 12 Article 636966
Since 2003, the world has been confronted with three new betacoronaviruses that cause human respiratory infections: SARS-CoV, which causes severe acute respiratory syndrome (SARS), MERS-CoV, which causes Middle East respiratory syndrome (MERS), and SARS-CoV-2, which causes Coronavirus Disease 2019 (COVID-19). The mechanisms of coronavirus transmission and dissemination in the human body determine the diagnostic and ...
Added: September 7, 2021
Klink G., Safina K., Nabieva E. et al., Virus Evolution 2022 Vol. 8 No. 1 Article veac017
Delta has outcompeted most preexisting variants of SARS-CoV-2, becoming the globally predominant lineage by mid-2021. Its subsequent evolution has led to the emergence of multiple sublineages, most of which are well-mixed between countries. By contrast, here we show that nearly the entire Delta epidemic in Russia has probably descended from a single import event, or ...
Added: June 4, 2022
Popkov A., Dubnov Y. A., Popkov Y., Информационные технологии и вычислительные системы 2022 № 3 С. 67-78
The work is devoted to application of the theory of Randomized Machine Learning to forecasting of the COVID-19 pandemic based on SIR epidemiological model. We propose two modelling variants, the first is based on estimation of SIR model using real case data, the second is based on the idea of modelling transmission coefficient and its prediction. Comparative study ...
Added: February 5, 2024
Nersisyan S., Shkurnikov M., Turchinovich A. et al., Plos One 2020 Vol. 15 No. 7 P. e0235987
Development of novel approaches for regulating the expression of angiotensin-converting enzyme 2 (ACE2) and transmembrane serine protease 2 (TMPRSS2) is becoming increasingly important within the context of the ongoing COVID-19 pandemic since these enzymes play a crucial role in cell infection. In this work we searched for putative ACE2 and TMPRSS2 expression regulation networks mediated ...
Added: July 29, 2020
Knyazev E., Калинин Р. С., Абрикосова В. А. et al., Клеточные технологии в биологии и медицине 2023 № 1 С. 40-46
We studied the effect of KDM5 family demethylase inhibitors (JIB-04, PBIT, and KDOAM-25) on the penetration of SARS-CoV-2 pseudotyped viruses into differentiated Caco-2 cells and HEK293T cells with ACE2 hyperexpression. The above drugs were not cytotoxic. Only KDOAM-25 significantly reduced viral entry into cells. At the same time, the level of ACE2 mRNA expression in Caco-2 significantly increased, while TMPRSS2 expression ...
Added: November 2, 2022
Nersisyan S., Шкурников М. Ю., Осипьянц А. И. et al., Вестник Российского государственного медицинского университета 2020 № 2 С. 17-20
Coronavirus SARS-CoV-2, the cause of the COVID-19 pandemic, enters the cell by binding the cell surface proteins: angiotensin-converting enzyme 2 (ACE2) and transmembrane serine protease 2 (TMPRSS2). The expression of these proteins varies significantly in individual organs and tissues of the human body. One of the proteins’ expression regulation mechanisms is based on the activity ...
Added: May 6, 2020
Makarova J., Фомичева К. А., Осипьянц А. И. et al., Биотехнология 2020 Т. 36 № 5 С. 6-12
Real-time RT-PCR currently remains a gold standard for early COVID-19 diagnostics. However
Loop-mediated isothermal amplification (LAMP) method outperform real-time RT-PCR in simplicity
because it doesn't require expensive lab equipment and trained personnel, and in speed. LAMP-based
diagnostic kits for COVID-19 testing are already exist, but LAMP-based tests have not been widely
accepted yet. The method has great potential for ...
Added: October 14, 2020
Красноярск : ИВМ СО РАН, 2013
Труды Пятой Международной конференции «Системный анализ и информационные технологии» САИТ-2013 (19–25 сентября 2013 г., г.Красноярск, Россия): ...
Added: November 18, 2013
Pham S. K., Antipov D., Sirotkin Alexander et al., Journal of Computational Biology 2013 Vol. 20 No. 4 P. 359-371
One of the key advances in genome assembly that has led to a significant improvement in contig lengths has been improved algorithms for utilization of paired reads (mate-pairs). While in most assemblers, mate-pair information is used in a post-processing step, the recently proposed Paired de Bruijn Graph (PDBG) approach incorporates the mate-pair information directly in ...
Added: March 21, 2014
М. : МАКС Пресс, 2013
В 2013 году Московский университет проводит очередной, крупнейший в Евразии Международный молодежный научный форум, центральным мероприятием которого является юбилейная, XX молодежная научная конференция студентов, аспирантов и молодых ученых.
Сопредседателями организационного комитета Форума являются ректор Московского университета, вице-президент РАН, академик РАН В.А.Садовничий и Министр образования и науки Российской Федерации Д.В. Ливанов. Проведению Форума традиционно оказывают поддержку Исполком ...
Added: April 16, 2015
Ижикевич Е. М., Ижевск : Ижевский институт компьютерных исследований, 2018
Предлагаемая книга является полноцветным изданием и относится к вычислительной нейродинамике. В ней изложены базовые понятия электрофизиологии нейронов и основы математического моделирования нейронной активности методами нелинейной динамики. Все главы этой книги представляют собой законченные разделы, в которых материал излагается доступным языком, с постепенным усложнением. Широкое использование геометрической и иллюстративной интерпретации основных математических понятий теории динамических систем делает книгу доступной широкому кругу читателей. ...
Added: February 25, 2019
Каз. : СМУиС, 2013
Вторая Всероссийская молодежная научная Интернет-конференция «Грани науки» проводится Казанским (Приволжским) федеральным университетом, Советом молодых ученых и специалистов города Казани (http://kznscience.ru) и Комитетом по делам детей и молодежи Исполкома Казани. ...
Added: July 7, 2016
Springer, 2018
Selected works from the BIOMAT Consortium Lectures, Moscow 2017
This book brings together carefully selected, peer-reviewed works on mathematical biology presented at the BIOMAT International Symposium on Mathematical and Computational Biology, which was held at the Institute of Numerical Mathematics, Russian Academy of Sciences, in October 2017, in Moscow. Topics covered include, but are not limited ...
Added: November 19, 2018
Popkov Y., Dubnov Y. A., Попков А. Ю., Информатика и автоматизация (Труды СПИИРАН) 2021 Т. 20 № 5 С. 1010-1033
© St. Petersburg Federal Research Center of the Russian Academy of Sciences.The paper is devoted to the forecasting of the COVID-19 epidemic by the novel method of randomized machine learning. This method is based on the idea of estimation of probability distributions of model parameters and noises on real data. Entropy-optimal distributions correspond to the ...
Added: October 28, 2022
Nurk S., Bankevich A., Antipov D. et al., Journal of Computational Biology 2013 Vol. 20 No. 10 P. 714-737
Recent advances in single-cell genomics provide an alternative to largely gene-centric metagenomics studies, enabling whole-genome sequencing of uncultivated bacteria. However, single-cell assembly projects are challenging due to (i) the highly nonuniform read coverage and (ii) a greatly elevated number of chimeric reads and read pairs. While recently developed single-cell assemblers have addressed the former challenge, ...
Added: March 21, 2014
Shchur V., Ziganurova L., Durbin R., / Cold Spring Harbor Laboratory. Series New Results "BioRxiv". 2018.
Estimation of the relationship between DNA sequences is one of the most important problems in genomics. Understanding these relationships is central to de- mographic inference, correction of population structure in GWAS, identifying signals of selection etc. The data structure containing the full information about sample genealogy is called the ancestral recombination graph (ARG). However, ARG ...
Added: February 7, 2019
Korotayev A., de Munck V., Cross - Cultural Research 2007 Vol. 41 P. 307-335
This article hypothesizes that in societies where spouses are considered to have relatively equal status, they are more likely to be intimate with one another than in societies where there is spousal status inequality. The authors ask: What are the core attributes of intimacy between husband and wife cross-culturally? And what sociocultural norms and practices are ...
Added: March 8, 2013
Komissarov A., Safina K., Garushyants S. et al., Nature Communications 2021 Vol. 12 P. 1-13
The ongoing pandemic of SARS-CoV-2 presents novel challenges and opportunities for the use of phylogenetics to understand and control its spread. Here, we analyze the emergence of SARS-CoV-2 in Russia in March and April 2020. Combining phylogeographic analysis with travel history data, we estimate that the sampled viral diversity has originated from at least 67 ...
Added: January 28, 2021
[б.и.], 2019
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Added: January 15, 2020