VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires
Shugay, Mikhail, Bagaev, Dmitriy V, Turchaninova, Maria A, Bolotin, Dmitriy A, Britanova, Olga V, Putintseva, Ekaterina V, Pogorelyy, Mikhail V, Nazarov, Vadim I, Zvyagin, Ivan V, Kirgizova, Vitalina I, Kirgizov, Kirill I, Skorobogatova, Elena V, Chudakov, Dmitriy M
Published in PLoS computational biology (01.11.2015)
Published in PLoS computational biology (01.11.2015)
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Journal Article
Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection
Minervina, Anastasia A, Komech, Ekaterina A, Titov, Aleksei, Bensouda Koraichi, Meriem, Rosati, Elisa, Mamedov, Ilgar Z, Franke, Andre, Efimov, Grigory A, Chudakov, Dmitriy M, Mora, Thierry, Walczak, Aleksandra M, Lebedev, Yuri B, Pogorelyy, Mikhail V
Published in eLife (05.01.2021)
Published in eLife (05.01.2021)
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Journal Article
Immune fingerprinting through repertoire similarity
Dupic, Thomas, Bensouda Koraichi, Meriem, Minervina, Anastasia A, Pogorelyy, Mikhail V, Mora, Thierry, Walczak, Aleksandra M
Published in PLoS genetics (04.01.2021)
Published in PLoS genetics (04.01.2021)
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Journal Article
Persisting fetal clonotypes influence the structure and overlap of adult human T cell receptor repertoires
Pogorelyy, Mikhail V, Elhanati, Yuval, Marcou, Quentin, Sycheva, Anastasiia L, Komech, Ekaterina A, Nazarov, Vadim I, Britanova, Olga V, Chudakov, Dmitriy M, Mamedov, Ilgar Z, Lebedev, Yury B, Mora, Thierry, Walczak, Aleksandra M
Published in PLoS computational biology (01.07.2017)
Published in PLoS computational biology (01.07.2017)
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Journal Article
Crohn’s-associated invariant T cells (CAITs) recognise small sulfonate molecules on CD1d
Minervina, Anastasia A, Pogorelyy, Mikhail V, Paysen, Steffen, Luening, Ulrich, Degenhardt, Frauke, Franke, Andre, Thomas, Paul G, Rosati, Elisa
Published in Gut (01.01.2024)
Published in Gut (01.01.2024)
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Journal Article
SARS-CoV-2-specific T cell memory with common TCRαβ motifs is established in unvaccinated children who seroconvert after infection
Rowntree, Louise C., Nguyen, Thi H.O., Kedzierski, Lukasz, Neeland, Melanie R., Petersen, Jan, Crawford, Jeremy Chase, Allen, Lilith F., Clemens, E. Bridie, Chua, Brendon, McQuilten, Hayley A., Minervina, Anastasia A., Pogorelyy, Mikhail V., Chaurasia, Priyanka, Tan, Hyon-Xhi, Wheatley, Adam K., Jia, Xiaoxiao, Amanat, Fatima, Krammer, Florian, Allen, E. Kaitlynn, Sonda, Sabrina, Flanagan, Katie L., Jumarang, Jaycee, Pannaraj, Pia S., Licciardi, Paul V., Kent, Stephen J., Bond, Katherine A., Williamson, Deborah A., Rossjohn, Jamie, Thomas, Paul G., Tosif, Shidan, Crawford, Nigel W., van de Sandt, Carolien E., Kedzierska, Katherine
Published in Immunity (12.07.2022)
Published in Immunity (12.07.2022)
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Web Resource
Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones
Minervina, Anastasia A, Pogorelyy, Mikhail V, Komech, Ekaterina A, Karnaukhov, Vadim K, Bacher, Petra, Rosati, Elisa, Franke, Andre, Chudakov, Dmitriy M, Mamedov, Ilgar Z, Lebedev, Yuri B, Mora, Thierry, Walczak, Aleksandra M
Published in eLife (21.02.2020)
Published in eLife (21.02.2020)
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Journal Article
A novel unconventional T cell population enriched in Crohn’s disease
Rosati, Elisa, Rios Martini, Gabriela, Pogorelyy, Mikhail V, Minervina, Anastasia A, Degenhardt, Frauke, Wendorff, Mareike, Sari, Soner, Mayr, Gabriele, Fazio, Antonella, Dowds, Christel Marie, Hauser, Charlotte, Tran, Florian, von Schönfels, Witigo, Pochhammer, Julius, Salnikova, Maria A, Jaeckel, Charlot, Gigla, Johannes Boy, Sabet, Sanaz Sedghpour, Hübenthal, Matthias, Schiminsky, Esther, Schreiber, Stefan, Rosenstiel, Philip C, Scheffold, Alexander, Thomas, Paul G, Lieb, Wolfgang, Bokemeyer, Bernd, Witte, Maria, Aden, Konrad, Hendricks, Alexander, Schafmayer, Clemens, Egberts, Jan-Hendrick, Mamedov, Ilgar Z, Bacher, Petra, Franke, Andre
Published in Gut (01.11.2022)
Published in Gut (01.11.2022)
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Journal Article
tcR: an R package for T cell receptor repertoire advanced data analysis
Nazarov, Vadim I, Pogorelyy, Mikhail V, Komech, Ekaterina A, Zvyagin, Ivan V, Bolotin, Dmitry A, Shugay, Mikhail, Chudakov, Dmitry M, Lebedev, Yury B, Mamedov, Ilgar Z
Published in BMC bioinformatics (28.05.2015)
Published in BMC bioinformatics (28.05.2015)
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Journal Article
VDJdb in the pandemic era: a compendium of T cell receptors specific for SARS-CoV-2
Goncharov, Mikhail, Bagaev, Dmitry, Shcherbinin, Dmitrii, Zvyagin, Ivan, Bolotin, Dmitry, Thomas, Paul G., Minervina, Anastasia A., Pogorelyy, Mikhail V., Ladell, Kristin, McLaren, James E., Price, David A., Nguyen, Thi H. O., Rowntree, Louise C., Clemens, E. Bridie, Kedzierska, Katherine, Dolton, Garry, Rius, Cristina Rafael, Sewell, Andrew, Samir, Jerome, Luciani, Fabio, Zornikova, Ksenia V., Khmelevskaya, Alexandra A., Sheetikov, Saveliy A., Efimov, Grigory A., Chudakov, Dmitry, Shugay, Mikhail
Published in Nature methods (01.09.2022)
Published in Nature methods (01.09.2022)
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Journal Article
Precise tracking of vaccine-responding T cell clones reveals convergent and personalized response in identical twins
Pogorelyy, Mikhail V., Minervina, Anastasia A., Touzel, Maximilian Puelma, Sycheva, Anastasiia L., Komech, Ekaterina A., Kovalenko, Elena I., Karganova, Galina G., Egorov, Evgeniy S., Komkov, Alexander Yu, Chudakov, Dmitriy M., Mamedov, Ilgar Z., Mora, Thierry, Walczak, Aleksandra M., Lebedev, Yuri B.
Published in Proceedings of the National Academy of Sciences - PNAS (11.12.2018)
Published in Proceedings of the National Academy of Sciences - PNAS (11.12.2018)
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Journal Article
The Changing Landscape of Naive T Cell Receptor Repertoire With Human Aging
Egorov, Evgeny S, Kasatskaya, Sofya A, Zubov, Vasiliy N, Izraelson, Mark, Nakonechnaya, Tatiana O, Staroverov, Dmitriy B, Angius, Andrea, Cucca, Francesco, Mamedov, Ilgar Z, Rosati, Elisa, Franke, Andre, Shugay, Mikhail, Pogorelyy, Mikhail V, Chudakov, Dmitriy M, Britanova, Olga V
Published in Frontiers in immunology (24.07.2018)
Published in Frontiers in immunology (24.07.2018)
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Journal Article
Distinctive properties of identical twins' TCR repertoires revealed by high-throughput sequencing
Zvyagin, Ivan V., Pogorelyy, Mikhail V., Ivanova, Marina E., Komech, Ekaterina A., Shugay, Mikhail, Bolotin, Dmitry A., Shelenkov, Andrey A., Kurnosov, Alexey A., Staroverov, Dmitriy B., Chudakov, Dmitriy M., Lebedev, Yuri B., Mamedov, Ilgar Z.
Published in Proceedings of the National Academy of Sciences - PNAS (22.04.2014)
Published in Proceedings of the National Academy of Sciences - PNAS (22.04.2014)
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Journal Article
Dynamics of Individual T Cell Repertoires: From Cord Blood to Centenarians
Britanova, Olga V, Shugay, Mikhail, Merzlyak, Ekaterina M, Staroverov, Dmitriy B, Putintseva, Ekaterina V, Turchaninova, Maria A, Mamedov, Ilgar Z, Pogorelyy, Mikhail V, Bolotin, Dmitriy A, Izraelson, Mark, Davydov, Alexey N, Egorov, Evgeny S, Kasatskaya, Sofya A, Rebrikov, Denis V, Lukyanov, Sergey, Chudakov, Dmitriy M
Published in The Journal of immunology (1950) (15.06.2016)
Published in The Journal of immunology (1950) (15.06.2016)
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Journal Article
The evidence for increased L1 activity in the site of human adult brain neurogenesis
Kurnosov, Alexey A, Ustyugova, Svetlana V, Nazarov, Vadim I, Minervina, Anastasia A, Komkov, Alexander Yu, Shugay, Mikhail, Pogorelyy, Mikhail V, Khodosevich, Konstantin V, Mamedov, Ilgar Z, Lebedev, Yuri B
Published in PloS one (17.02.2015)
Published in PloS one (17.02.2015)
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Journal Article
Inactivated tick-borne encephalitis vaccine elicits several overlapping waves of T cell response
Sycheva, Anastasiia L., Komech, Ekaterina A., Pogorelyy, Mikhail V., Minervina, Anastasia A., Urazbakhtin, Shamil Z., Salnikova, Maria A., Vorovitch, Mikhail F., Kopantzev, Eugene P., Zvyagin, Ivan V., Komkov, Alexander Y., Mamedov, Ilgar Z., Lebedev, Yuri B.
Published in Frontiers in immunology (24.08.2022)
Published in Frontiers in immunology (24.08.2022)
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Journal Article
MHC-II alleles shape the CDR3 repertoires of conventional and regulatory naïve CD4⁺ T cells
Logunova, Nadezhda N., Kriukova, Valeriia V., Shelyakin, Pavel V., Egorov, Evgeny S., Pereverzeva, Alina, Bozhanova, Nina G., Shugay, Mikhail, Shcherbinin, Dmitrii S., Pogorelyy, Mikhail V., Merzlyak, Ekaterina M., Zubov, Vasiliy N., Meiler, Jens, Chudakov, Dmitriy M., Apt, Alexander S., Britanova, Olga V.
Published in Proceedings of the National Academy of Sciences - PNAS (16.06.2020)
Published in Proceedings of the National Academy of Sciences - PNAS (16.06.2020)
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