Научные руководители
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Сергушичев Алексей Александровичкандидат технических наук alserg@itmo.ru Структурное подразделение: факультет информационных технологий и программирования Должность: доцент (квалификационная категория "ординарный доцент") Профиль: 1.2.1. - Искусственный интеллект и машинное обучение 05.13.18 - Математическое моделирование, численные методы и комплексы программ 1.2.2. - Математическое моделирование, численные методы и комплексы программ 2.3.8. - Информатика и информационные процессы 05.13.17 - Теоретические основы информатики Область интересов: Биоинформатика и системная биология. Методы анализа экспрессии генов и других биологических данных. Дискретная оптимизация на графах, задачи целочисленного линейного программирования. Рабочий язык: Английский, Русский |
Публикации руководителя
| Выходные данные | Год | Индексирование в БД |
| Pinakhina D., Loboda A., Sergushichev A., Artomov M. Gene, cell type, and drug prioritization analysis suggest genetic basis for the utility of diuretics in treating Alzheimer disease//Human Genetics and Genomics Advances, 2023, Vol. 4, No. 3, pp. 100203 | 2023 | Scopus, Web of Science |
| Mogilenko D.A., Sergushichev A., Artyomov M. Systems Immunology Approaches to Metabolism//Annual Review of Immunology, 2023, Vol. 41, pp. 317-342 | 2023 | Scopus, Web of Science |
| Gainullina A., Mogilenko D.A., Huang L.H., Todorov H., Narang V., Kim K., Yng L., Kent A., Jia B., Seddu K., Krchma K., Wu J., Crozat K., Tomasello E., Dress R., See P., Scott C., Gibbings S., Bajpai G., Desai J., Maier B., This S., Wang P., Aguilar S., Poupel L., Dussaud S., Zhou T., Angeli V., Blander J., Choi K., Dalod M., Dzhagalov I., Gautier E., Jakubzick C., Lavine K., Lionakis M., Paidassi H., Sieweke M.H., Ginhoux F., Guilliams M., Benoist C., Merad M., Randolph G.J., Sergushichev A., Artyomov M.N. Network analysis of large-scale ImmGen and Tabula Muris datasets highlights metabolic diversity of tissue mononuclear phagocytes//Cell Reports, 2023, Vol. 42, No. 2, pp. 112046 | 2023 | Scopus, Web of Science |
| Larionova I., Kiselev A., Kazakova E., Liu T., Patysheva M., Iamshchikov P., Liu Q., Mossel D.M., Riabov V., Rakina M., Sergushichev A., Bezgodova N., Vtorushin S., Litviakov N., Denisov E., Koshkin P., Pyankov D., Tsyganov M., Ibragimova M., Cherdyntseva N., Kzhyshkowska J. Tumor-associated macrophages respond to chemotherapy by detrimental transcriptional reprogramming and suppressing stabilin-1 mediated clearance of EGF//Frontiers in Immunology, 2023, Vol. 14, pp. 1000497 | 2023 | Scopus, Web of Science |
| Pinakhina D., Yermakovich D., Vergasova E., Kasyanov E., Rukavishnikov G., Rezapova V., Kolosov N., Sergushichev A., Popov I., Kovalenko E., Ilinskaya A., Kim A., Plotnikov N., Ilinsky V., Neznanov N., Mazo G., Kibitov A., Rakitko A., Artomov M. GWAS of depression in 4,520 individuals from the Russian population highlights the role of MAGI2 (S-SCAM) in the gut-brain axis//Frontiers in Genetics, 2023, Vol. 13, pp. 972196 | 2023 | Scopus, Web of Science |
| Kolosov N., Rezapova V., Rotar O., Loboda A., Freylikhman O., Melnik O., Sergushichev A., Stevens C., Voortman T., Kostareva A., Konradi A., Daly M., Artomov M. Genotype imputation and polygenic score estimation in northwestern Russian population//PLoS ONE, 2022, Vol. 17, No. 6, pp. e0269434 | 2022 | Scopus, Web of Science |
| Dufour C., Xia H., B’Chir W., Perry M., Kuzmanov U., Gainullina A., Dejgaard K., Scholtes C., Ouellet C., Zuo D., Sanguin-Gendreau V., Guluzian C., Smith H., Muller W., Audet-Walsh E., Sergushichev A.A., Emili A., Giguere V. Integrated multi-omics analysis of adverse cardiac remodeling and metabolic inflexibility upon ErbB2 and ERRAlpha deficiency//Communications Biology, 2022, Vol. 5, No. 1, pp. 955 | 2022 | Scopus, Web of Science |
| Rotar O., Boyarinova M.A., Moguchaya E.V., Tolkunova K., Kolosov N., Rezapova V., Freylikhman O., Usoltsev D., Melnik O., Sergushichev A.A., Solntsev V., Kostareva A.A., Dubinina E., Voortman T., Stevens C., Daly M., Konradi A.O., Schlyakhto E., Artomov M. Case Report: Supernormal Vascular Aging in Leningrad Siege Survivors//Frontiers in Cardiovascular Medicine, 2022, Vol. 9, pp. 843439 | 2022 | Scopus, Web of Science |
| Emelianova M., Gainullina A., Poperechnyi N., Loboda A.A., Artyomov M., Sergushichev A. Shiny GATOM: omics-based identification of regulated metabolic modules in atom transition networks//Nucleic Acids Research, 2022, Vol. 50, No. 1, pp. W690-W696 | 2022 | Scopus, Web of Science |
| Gainullina A., Shalyto A.A., Sergushichev A.A. Method for Joint Clustering in Graph and Correlation Spaces//Automatic Control and Computer Sciences, 2021, Vol. 55, No. 7, pp. 647-657 | 2021 | Scopus, Web of Science |
| Merlin J., Ivanov S., Dumont A., Sergushichev A.A., Gall J., Stunault M.I., Ayrault M., Vaillant N., Castiglione A., Swain A., Orange F., Gallerand A., Berton T., Martin J., Carobbio S., Masson J., Gaisler-Salomon I., Maechler P., Rayport S., Sluimer J., Biessen E., Guinamard R.R., Gautier E., Thorp E.B., Artyomov M.N., Yvan-Charvet L. Non-canonical glutamine transamination sustains efferocytosis by coupling redox buffering to oxidative phosphorylation//Nature Metabolism, 2021, Vol. 3, No. 10, pp. 1313-1326 | 2021 | Scopus, Web of Science |
| Santeford A., Lee A.Y., Sene A., Hassman L., Sergushichev A.A., Loginicheva E., Artyomov M.N., Ruzycki P.A., Apte R.S. Loss of Mir146b with aging contributes to inflammation and mitochondrial dysfunction in thioglycollate-elicited peritoneal macrophages//eLife, 2021, Vol. 10, pp. e66703 | 2021 | Scopus, Web of Science |
| Perepelina K.I., Klauzen P., Khudiakov A., Zlotina A.M., Fomicheva Y., Rudenko D., Gordeev M., Sergushichev A.A., Malashicheva A.B., Kostareva A.A. Generation of two iPSC lines (FAMRCi006-A and FAMRCi006-B) from patient with dilated cardiomyopathy and Emery–Dreifuss muscular dystrophy associated with genetic variant LMNAp.Arg527Pro.//Stem Cell Research, 2020, Vol. 43, pp. 101714 | 2020 | Scopus, Web of Science |
| Гайнуллина А.Н., Шалыто А.А., Сергушичев А.А. Метод совместной кластеризации в графовом и корреляционном пространствах // Моделирование и анализ информационных систем -2020. - Т. 27. - № 2. - С. 180-193 | 2020 | RSCI, ВАК, РИНЦ |
| Perepelina K.I., Kostina A.S., Klauzen P., Khudiakov A., Rabino M., Crasto S., Zlotina A.M., Fomicheva Y., Sergushichev A.A., Oganesian M., Dmitriev A., Kostareva A.A., Di Pasquale E., Malashicheva A.B. Generation of two iPSC lines (FAMRCi007-A and FAMRCi007-B) from patient with Emery–Dreifuss muscular dystrophy and heart rhythm abnormalities carrying genetic variant LMNA p.Arg249Gln//Stem Cell Research, 2020, Vol. 47, pp. 101895 | 2020 | Scopus, Web of Science |
| Ignatieva E.V., Ivanova O.A., Komarova M.Y., Khromova N.V., Polev D.E., Kostareva A.A., Sergushichev A.A., Dmitrieva R. Lmna mutations g232e and r482l cause dysregulation of skeletal muscle differentiation, bioenergetics, and metabolic gene expression profile//Genes, 2020, Vol. 11, No. 9, pp. 1057 | 2020 | Scopus, Web of Science |
| Aguilar S., Aguilar O., Allan R., Amir E., Angeli V., Artyomov M.N., Asinovski N., Astarita J., Austen K., Bajpai G., Barrett N., Baysoy A., Benoist C., Bellemare-Pelletier A., Berg B., Best A., Bezman N., Blair D., Blander J., Bogunovic M., Brennan P., Brenner M., Brown B., Buechler M., Buenrostro J., Casanova M., Choi K., Chow A., Chudnovskiy A., Cipoletta D., Cohen N., Collins J., Colonna M., Cook A., Costello J., Cremasco V., Crowl T., Crozat K., Cruse R., D’Angelo J., Dalod M., Davis S., Demiralp C., Deng T., Desai J., Desland F., Dhainaut M., Ding J., Doedens A., Dominguez C., Doran G., Dress R., Dustin M., Dwyer D., Dzhagalov I., Elpek K., Ergun A., Ericson J., Esomonu E., Fairfax K., Fletcher A., Frascoli M., Fuchs A., Gainullina A., Gal-Oz S., Gallagher M., Gautier E., Gazit R., Gibbings S., Giraud M., Ginhoux F., Goldrath A., Gotthardt D., Gray D., Greter M., Grieshaber-Bouyer R., Guilliams M., Haidermota S., Hardy R., Hashimoto D., Helft J., Hendricks D., Heng T., Hill J., Hyatt G., Idoyaga J., Jakubzick C., Jarjoura J., Jepson D., Jia B., Jianu R., Johanson T., Jordan S., Jojic V., Kamimura Y., Kana V., Kang J., Kapoor V., Kenigsberg E., Kent A., Kim C., Kim E., Kim F., Kim J., Kim K., Kiner E., Knell J., Koller D., Krchma K., Kozinn L., Kreslavsky T., Kronenberg M., Kwan W., Laidlaw D., Lam V., Lanier L., Laplace C., Lareau C., Lavin Y., Lavine K., Leader A., Leboeuf M., Lee J., Lee J., Li B., Li H., Li Y., Lionakis M., Luche H., Lynch L., Magen A., Maier B., Malhotra D., Malhotra N., Malissen M., Maslova A., Mathis D., Mcfarland A., Merad M., Meunier E., Miller J., Milner J., Mingueneau M., Min-Oo G., Monach P., Moodley D., Mortha A., Morvan M., Mostafavi S., Muller S., Muus C., Nabekura T., Nageswara Rao T., Narang V., Narayan K., Ner-Gaon H., Nguyen Q., Nigrovic P., Novakovsky G., Nutt S., Omilusik K., Ortiz-Lopez A., Paidassi H., Paik H., Painter M., Paynich M., Peng V., Potempa M., Pradhan R., Price J., Qi Y., Qi Y., Quon S., Ramirez R., Ramanan D., Randolph G., Regev A., Rhoads A., Robinette M., Rose S., Rossi D., Rothamel K., Sachidanandam R., Sathe P., Scott C., Seddu K., See P., Sergushichev A., Shaw L., Shay T., Shemesh A., Shinton S., Shyer J., Sieweke M., Smillie C., Spel L., Spidale N., Stifano G., Subramanian A., Sun J., Sylvia K., Tellier J., This S., Tomasello E., Todorov H., Turley S., Vijaykumar B., Wagers A., Wakamatsu E., Wang C., Wang P., Wroblewska A., Wu J., Yang E., Yang L., Yim A., Yng L., Yoshida H., Yu B., Zhou Y., Zhu Y., Ziemkiewicz C. ImmGen at 15//Nature Immunology, 2020, Vol. 21, No. 7, pp. 700-703 | 2020 | Scopus, Web of Science |
| Гайнуллина А.Н., Сухов В.Д., Шалыто А.А., Сергушичев А.А. Применение метода независимых компонент для определения начального приближения при поиске активных модулей в биологических графах [Independent component analysis for initial approximation determination in identification of active modules in biological graphs] // Научно-технический вестник информационных технологий, механики и оптики [Scientific and Technical Journal of Information Technologies, Mechanics and Optics] -2020. - Т. 20. - № 6(130). - С. 888-892 | 2020 | RSCI, Scopus, ВАК, РИНЦ |
| Гайнуллина А.Н., Артемов М., Сергушичев А.А. Модификация метода совместной кластеризации в графовом и корреляционном пространствах [Method of joint clustering in network and correlation spaces] // Научно-технический вестник информационных технологий, механики и оптики [Scientific and Technical Journal of Information Technologies, Mechanics and Optics] -2020. - Т. 20. - № 6(130). - С. 807-814 | 2020 | RSCI, Scopus, ВАК, РИНЦ |
| Zlotina A., Melnik O., Fomicheva Y., Skitchenko R.K., Sergushichev A., Shagimardanova E., Gusev O., Gazizova G., Loevets T., Vershinina T., Kozyrev I., Gordeev M., Vasichkina E., Pervunina T., Kostareva A.A. A 300-kb microduplication of 7q36.3 in a patient with triphalangeal thumb-polysyndactyly syndrome combined with congenital heart disease and optic disc coloboma: a case report//BMC Medical Genomics, 2020, Vol. 13, No. 1, pp. 175 | 2020 | Scopus, Web of Science |
| Alexeev N., Isomurodov J., Sukhov V., Korotkevich G., Sergushichev A. Markov chain Monte Carlo for active module identification problem//BMC Bioinformatics, 2020, Vol. 21, No. 6, pp. 261 | 2020 | Scopus, Web of Science |
| Vershinina T., Fomicheva Y., Muravyev A., Jorholt J., Kozyreva A., Kiselev A.M., Gordeev M., Vasichkina E., Sergushichev A., Pervunina T.М., Sjoberg G., Skyttner-Rahmani S., Sejersen T., Kostareva A.A. Genetic Spectrum of Left Ventricular Non-Compaction in Paediatric Patients//Cardiology, 2020, Vol. 145, No. 11, pp. 746-755 | 2020 | Scopus, Web of Science |
| Лобода А.А., Сергушичев А.А. Вывод генных регуляторных сетей по данным экспрессии генов при помощи байесовских сетей [Inferring of regulatory networks from expression data using bayesian networks] // Научно-технический вестник информационных технологий, механики и оптики [Scientific and Technical Journal of Information Technologies, Mechanics and Optics] -2020. - Т. 20. - № 6(130). - С. 835-840 | 2020 | RSCI, Scopus, ВАК, РИНЦ |
| Bambouskova M., Gorvel L., Lampropoulou V., Sergushichev A., Loginicheva E., Jovanovic M., Klechevsky E., Stewart K.M., Randolph G.J., Artyomov M.N. Electrophilic properties of itaconate regulating macrophage activation//Journal of Immunology, 2020, Vol. 204, No. 1(Suppl.), pp. 152.17 | 2020 | Scopus, Web of Science |
| Иванова О.А., Игнатьева Е.В., Лелявина Т.А., Галенко В.Л., Комарова М.Ю., Борцова М.А., Ситникова М.Ю., Костарева А.А., Сергушичев А.А., Дмитриева Р.И. Анализ транскриптома скелетной мускулатуры выявил влияние физических тренировок на молекулярные механизмы регуляции роста и метаболизма мышечной ткани у пациентов с хронической сердечной недостаточнстью // Российский кардиологический журнал [Russian Journal of Cardiology] -2020. - Т. 25. - № 10. - С. 79-86 | 2020 | RSCI, Scopus, ВАК, РИНЦ |
| Pelgrom L.R., Patente T.A., Sergushichev A.A., Esaulova E., Otto F., Ozir-Fazalalikhan A., Van Der Zande H.J., Van Der Ham A.J., Van Der Stel S., Artyomov M.N., Everts B. LKB1 expressed in dendritic cells governs the development and expansion of thymus-derived regulatory T cells//Cell Research, 2019, Vol. 29, No. 5, pp. 406-419 | 2019 | Scopus, Web of Science |
| Иванова О.А., Игнатьева Е., Лелявина Т.А., Галенко В.Л., Комарова М.Ю., Ситникова М.Ю., Костарева А.А., Сергушичев А.А., Дмитриева Р.И. Исследование дифференциальной экспрессии и сигнальных путей в скелетной мускулатуре пациентов с ХСН после физической реабилитации // Гены и клетки [Genes and Cells] -2019. - Т. 14. - № Приложение. - С. 101 | 2019 | ВАК, РИНЦ |
| Ivanova O.A., Ignatieva E.V., Lelyavina T.A., Galenko V.L., Kiselev A.M., Sitnikova M.Y., Kostareva A.A., Dmitrieva R.I., Sergushichev A. Transcriptome sequencing revealed the upregulation of pathways that control regeneration and calcium handling in skeletal muscles of heart failure patients undergoing exercise rehabilitation program//European Journal of Heart Failure, 2019, Vol. 21, No. S1, pp. 578-579 | 2019 | Scopus, Web of Science |
| Lelyavina T., Galenko V.L., Ivanova O.A., Komarova M.Y., Ignatieva E.V., Bortsova M.A., Yukina G.Y., Khromova N.V., Sitnikova M.Y., Kostareva A.A., Sergushichev A., Dmitrieva R.I. Clinical Response to Personalized Exercise Therapy in Heart Failure Patients with Reduced Ejection Fraction Is Accompanied by Skeletal Muscle Histological Alterations//International Journal of Molecular Sciences, 2019, Vol. 20, No. 21, pp. 5514 | 2019 | Scopus, Web of Science |
| Kiselev A., Vaz R., Knyazeva A., Sergushichev A.A., Dmitrieva R., Khudiakov A., Jorholt J., Smolina N.A., Sukhareva K., Fomicheva Y., Mikhaylov E.N., Mitrofanova L.B., Predeus A.V., Sjoberg G., Rudenko D., Sejersen T., Lindstrand A., Kostareva A.A. Truncating variant in MYOF gene is associated with limb-girdle type muscular dystrophy and cardiomyopathy//Frontiers in Genetics, 2019, Vol. 10, pp. 608 | 2019 | Scopus, Web of Science |
| Zlotina A., Kiselev A., Sergushichev A., Parmon E., Kostareva A.A. Synemin expression profile during tissue-specific differentiation of mesenchymal stromal cells confirms its possible involvement in heart-hand syndrome//European Journal of Human Genetics, 2019, Vol. 27, No. Suppl.1, pp. 1008-1009 | 2019 | Scopus, Web of Science |
| Dmitrieva R.I., Lelyavina T.A., Komarova M.Y., Galenko V.L., Ivanova O.A., Tikanova P.A., Khromova N., Golovkin A.S., Bortsova M.A., Sergushichev A.A., Sitnikova M.Y., Kostareva A.A. Skeletal muscle resident progenitor cells coexpress mesenchymal and myogenic markers and are not affected by chronic heart failure-induced dysregulations//Stem Cells International, 2019, pp. 5690345 | 2019 | Scopus, Web of Science |
| Kiselev A., Kornishina T., Sergushichev A., Smolina N., Klyushina A., Pervunina T., Bang M.L., Sjoberg G., Sejersen T., Kostareva A. New variant in CMYA5 gene is associated with early-onset restrictive cardiomyopathy and autism-spectrum disorder//Cardiovascular Research, 2018, Vol. 114, No. suppl.1, pp. S19 | 2018 | Scopus, Web of Science |
| Zlotina A., Kiselev A., Sergushichev A.A., Parmon E., Kostareva A.A. Rare case of ulnar-mammary-like syndrome with left ventricular tachycardia and lack of TBX3 mutation//Frontiers in Genetics, 2018, Vol. 9, pp. 209 | 2018 | Scopus, Web of Science |
| Bambouskova M., Gorvel L., Lampropoulou V., Sergushichev A.A., Loginicheva E., Johnson K., Korenfeld D., Mathyer M.E., Kim H., Huang L.H., Duncan D., Bregman H., Keskin A., Santeford A., Apte R.S., Sehgal R., Johnson B., Amarasinghe G.K., Soares M.P., Satoh T., Akira S., Hai T., Strong C.D., Auclair K., Roddy T.P., Biller S.A., Jovanovic M., Klechevsky E., Stewart K.M., Randolph G.J., Artyomov M.N. Electrophilic properties of itaconate and derivatives regulate the I kappa B zeta-ATF3 inflammatory axis//Nature, 2018, Vol. 556, No. 7702, pp. 501-504 | 2018 | Scopus, Web of Science |
| Kiselev A., Vaz R., Knyazeva A., Khudiakov A., Tarnovskaya S., Liu J., Sergushichev A.A., Kazakov S.V., Frishman D., Smolina N.A., Pervunina T., Jorholt J., Sjoberg G., Vershinina T., Rudenko D., Arner A., Sejersen T., Lindstrand A., Kostareva A.A. De novo mutations in FLNC leading to early-onset restrictive cardiomyopathy and congenital myopathy//Human Mutation, 2018, Vol. 39, No. 9, pp. 1161-1172 | 2018 | Scopus, Web of Science |
| Kostina A., Kiselev A., Bjorck H., Irtyuga O., Sergushichev A.A., Baranov Y., Eriksson P., Kostareva A., Malashicheva A. Notch signaling pathway is attenuated in aortic endothelial cells of patients with aortic pathologies associated with bicuspid aortic valve//Cardiovascular Research, 2018, Vol. 114, No. suppl.1, pp. S83 | 2018 | Scopus, Web of Science |
| Howard N.C., Marin N.D., Ahmed M., Rosa B.A., Martin J., Bambouskova M., Sergushichev A., Loginicheva E., Kurepina N., Rangel-Moreno J., Chen L., Kreiswirth B.N., Klein R.S., Balada-Llasat J., Torrelles J.B., Amarasinghe G.K., Mitreva M., Artyomov M.N., Hsu F.F., Mathema B., Khader S.A. Mycobacterium tuberculosis carrying a rifampicin drug resistance mutation reprograms macrophage metabolism through cell wall lipid changes//Nature Microbiology, 2018, Vol. 3, No. 10, pp. 1099-1108 | 2018 | Scopus, Web of Science |
| Howard N.C., Marin N.D., Ahmed M., Rosa B.A., Martin J., Bambouskova M., Sergushichev A.A., Loginicheva E., Kurepina N., Rangel-Moreno J., Chen L., Kreiswirth B.N., Klein R.S., Balada-Llasat J., Torrelles J.B., Amarasinghe G.K., Mitreva M., Artyomov M.N., Hsu F.F., Mathema B., Khader S.A. Erratum to: Mycobacterium tuberculosis carrying a rifampicin drug resistance mutation reprograms macrophage metabolism through cell wall lipid changes (Nature Microbiology, (2018), 3, 10, (1099-1108), 10.1038/s41564-018-0245-0)//Nature Microbiology, 2018, Vol. 3, No. 11, pp. 1327 | 2018 | Scopus, Web of Science |
| Khudiakov A., Kostina D., Zlotina A., Nikulina T., Sergushichev A.A., Gudkova A., Tomilin A., Malashicheva A.B., Kostareva A.A. Generation of iPSC line from desmin-related cardiomyopathy patient carrying splice site mutation of DES gene//Stem Cell Research, 2017, Vol. 24, pp. 77-80 | 2017 | Scopus, Web of Science |
| Ulland T.K., Song W., Huang S.C., Ulrich J.D., Sergushichev A.A., Beatty W.L., Loboda A.A., Zhou Y., Cairns N.J., Kambal A., Loginicheva E., Gilfillan S., Cella M., Virgin H.W., Unanue E.R., Wang Y., Artyomov M.N., Holtzman D.M., Colonna M. TREM2 Maintains Microglial Metabolic Fitness in Alzheimer's Disease//Cell, 2017, Vol. 170, No. 4, pp. 649-663.e13 | 2017 | Scopus, Web of Science |
| Isomurodov J.E., Loboda A.A., Sergushichev A.A. Ranking Vertices for Active Module Recovery Problem//Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2017, Vol. 10252, pp. 75-84 | 2017 | Scopus, Web of Science |
| Khudiakov A., Kostina D., Zlotina A., Yany N., Sergushichev A.A., Pervunina T., Tomilin A., Kostareva A.A., Malashicheva A.B. Generation of iPSC line from patient with arrhythmogenic right ventricular cardiomyopathy carrying mutations in PKP2 gene//Stem Cell Research, 2017, Vol. 24, pp. 85-88 | 2017 | Scopus, Web of Science |
| Lu Q., Yokoyama C.C., Williams J.W., Baldridge M.T., Jin X., Desrochers B., Bricker T., Wilen C.B., Bagaitkar J., Loginicheva E., Sergushichev A., Kreamalmeyer D., Keller B.C., Zhao Y., Kambal A., Green D.R., Martinez J., Dinauer M.C., Holtzman M.J., Crouch E.C., Beatty W., Boon A.C., Zhang H., Randolph G.J., Artyomov M.N., Virgin H.W. Homeostatic Control of Innate Lung Inflammation by Vici Syndrome Gene Epg5 and Additional Autophagy Genes Promotes Influenza Pathogenesis//Cell Host and Microbe, 2016, Vol. 19, No. 1, pp. 102-113 | 2016 | Scopus, Web of Science |
| Sergushichev A.A., Loboda A.A., Jha A.K., Vincent E.E., Driggers E.M., Jones R.G., Pearce E.J., Artyomov M.N. GAM: a web-service for integrated transcriptional and metabolic network analysis//Nucleic Acids Research, 2016, Vol. 44, No. 1, pp. W194-W200 | 2016 | Scopus, Web of Science |
| Lampropoulou V., Sergushichev A.A., Bambouskova M., Nair S., Vincent E.E., Loginicheva E., Cervantes-Barragan L., Ma X., Huang S., Griss T., Weinheimer C.J., Khader S.A., Randolph G.J., Pearce E.J., Jones R.G., Diwan A., Diamond M.S., Artyomov M.N. Itaconate Links Inhibition of Succinate Dehydrogenase with Macrophage Metabolic Remodeling and Regulation of Inflammation//Cell Metabolism, 2016, Vol. 24, No. 1, pp. 158–166 | 2016 | Scopus, Web of Science |
| Artyomov M.N., Sergushichev A., Schilling J. Integrating immunometabolism and macrophage diversity//Seminars in Immunology, 2016, Vol. 28, No. 5, pp. 417-424 | 2016 | Scopus, Web of Science |
| Izreig S., Samborska B., Johnson R.M., Sergushichev A., Ma E.H., Lussier C., Loginicheva E., Donayo A.O., Poffenberger M.C., Sagan S.M., Vincent E.E., Artyomov M.N., Duchaine T.F., Jones R.G. The miR-17 similar to 92 microRNA Cluster Is a Global Regulator of Tumor Metabolism//Cell Reports, 2016, Vol. 16, No. 7, pp. 1915-1928 | 2016 | Scopus, Web of Science |
| Derr A.C., Yang C., Zilionis R., Sergushichev A.A., Blodgett D., Redick S., Bortell R., Luban J., Harlan В.M., Kadener S., Greiner D.L., Klein A., Artyomov M.N., Garber M. End Sequence Analysis Toolkit (ESAT) expands the extractable information from single-cell RNA-seq data//Genome Research, 2016, Vol. 26, No. 10, pp. 1397-1410 | 2016 | Scopus, Web of Science |
| Loboda A.A., Artyomov M.N., Sergushichev A.A. Solving generalized maximum-weight connected subgraph problem for network enrichment analysis//Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2016, Vol. 9838, pp. 210-221 | 2016 | Scopus, Web of Science |
| Glotov A.S., Kazakov S., Zhukova E.A., Alexandrov A., Glotov O.S., Pakin V.S., Danilova M.M., Poliakova I.V., Niyazova S.S., Chakova N.N., Komissarova S.M., Kurnikova E.A., Sarana A.M., Sherbak S.G., Sergushichev A., Shalyto A., Baranov V.S. Targeted next-generation sequencing (NGS) of nine candidate genes with custom AmpliSeq in patients and a cardiomyopathy risk group//Clinica Chimica Acta, 2015, Vol. 446, pp. 132-140 | 2015 | Scopus, Web of Science |
| Jha A.K., Huang S.C., Sergushichev A.A., Lampropoulou V., Ivanova Y., Loginicheva E., Chmielewski K., Stewart K.M., Ashall J., Everts B., Pearce E.J., Driggers E.M., Artyomov M.N. Network integration of parallel metabolic and transcriptional data reveals metabolic modules that regulate macrophage polarization//Immunity, 2015, Vol. 42, No. 3, pp. 419-430 | 2015 | Scopus, Web of Science |
| Vincent E.E., Sergushichev A.A., Griss T., Gingras M., Samborska B., Ntimbane T., Coelho P.P., Blagih J., Raissi T.C., Choiniere L., Bridon G., Loginicheva E., Flynn B.R., Thomas E.C., Tavare J.M., Avizonis D.Z., Pause A.P., Elder D.J., Artyomov M.N., Jones R.G. Mitochondrial Phosphoenolpyruvate Carboxykinase Regulates Metabolic Adaptation and Enables Glucose-Independent Tumor Growth//Molecular Cell, 2015, Vol. 60, No. 2, pp. 195-207 | 2015 | Scopus, Web of Science |
| Bradnam K.R., Fass J.N., Alexandrov A., Baranay P., Bechner M., Birol I., Boisvert S., Chapman J.A., Chapuis G., Chikhi R., Chitsaz H., Chou W., Corbeil J., Del Fabbro C., Docking T.R., Durbin R., Earl D., Emrich S., Fedotov P., Fonseca N.A., Ganapathy G., Gibbs R.A., Gnerre S., Godzaridis E., Goldstein S., Haimel M., Hall G., Haussler D., Hiatt J.B., Ho I.Y., Howard J., Hunt M., Jackman S.D., Jaffe D.B., Jarvis E.D., Jiang H., Kersey P.J., Kazakov S., Kitzman J.O., Knight J.R., Koren S., Lam T., Lavenier D., Laviolette F., Li Z., Li Y., Liu B., Liu Y., Luo R., Maccallum I., Macmanes M.D., Maillet N., Melnikov S., Naquin D., Ning Z., Otto T.D., Paten B., Paulo O., Phillippy A.M., Pina-Martins F., Place M., Przybylski D., Qin X., Qu C., Ribeiro F.J., Richards S., Rokhsar D.S., Ruby J.G., Scalabrin S., Schatz M.C., Schwartz D.C., Sergushichev A., Sharpe T., Shaw T.I., Shendure J., Shi Y., Simpson J.T., Song H., Tsarev F., Vezzi F., Vicedomini R., Vieira B.M., Wang J., Worley K.C., Yin S., Yiu S., Yuan J., Zhang G., Zhang H., Zhou S., Korf I.F. Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species//GigaScience, 2013, Vol. 2, No. 1, pp. 10 | 2013 | Scopus, Web of Science |
| Сергушичев А.А., Александров А.В., Казаков С.В., Царев Ф.Н., Шалыто А.А. Совместное применение графа де Брейна, графа перекрытий и микросборки для de novo сборки генома [Combining De Bruijn Graphs, Overlap Graphs and Microassembly for De Novo Genome Assembly] // Известия Саратовского университета. Новая серия. Серия: Математика. Механика. Информатика [ Izvestiya of Saratov University. New Series. Series: Mathematics. Mechanics. Informatics] -2013. - Т. 13. - № 2-2. - С. 51–57 | 2013 | Web of Science, ВАК, РИНЦ |
| Александров А.В., Казаков С.В., Сергушичев А.А., Царев Ф.Н., Шалыто А.А. Применение эволюционного программирования на основе обучающих примеров для генерации конечных автоматов, управляющих объектами со сложным поведением // Известия Российской академии наук. Теория и системы управления -2013. - № 3. - С. 85-100 | 2013 | ВАК, РИНЦ |
| Aleksandrov A.V., Tsarev F.N., Kazakov S.V., Sergushichev A.A., Shalyto A.A. The use of evolutionary programming based on training examples for the generation of finite state machines for controlling objects with complex behavior//Journal of Computer and Systems Sciences International, 2013, Vol. 52, No. 3, pp. 410-425 | 2013 | Scopus, Web of Science |
| Александров А.В., Казаков С.В., Мельников С.В., Сергушичев А.А., Царев Ф.Н. Метод сборки контигов геномных последовательностей на основе совместного применения графов Де Брюина и графов перекрытий // Научно-технический вестник информационных технологий, механики и оптики [Scientific and Technical Journal of Information Technologies, Mechanics and Optics] -2012. - № 6(82). - С. 93-98 | 2012 | ВАК, РИНЦ |
| Aleksandrov A.V., Sergushichev A.A., Kazakov S.V., Tsarev F.N. Genetic algorithm for induction of finite automata with continuous and discrete output actions//Genetic and Evolutionary Computation Conference, GECCO'11 - Companion Publication, 2011, pp. 775-778 | 2011 | Scopus |
| Александров А.В., Казаков С.В., Мельников С.В., Сергушичев А.А., Царев Ф.Н., Шалыто А.А. Метод исправления ошибок в наборе чтений нуклеотидной последовательности // Научно-технический вестник Санкт-Петербургского государственного университета информационных технологий, механики и оптики -2011. - № 5(75). - С. 81-84 | 2011 | ВАК, РИНЦ |