Regulatory T Cells Exhibit Distinct Features in Human Breast Cancer
Plitas, George, Konopacki, Catherine, Wu, Kenmin, Bos, Paula D., Morrow, Monica, Putintseva, Ekaterina V., Chudakov, Dmitriy M., Rudensky, Alexander Y.
Published in Immunity (Cambridge, Mass.) (15.11.2016)
Published in Immunity (Cambridge, Mass.) (15.11.2016)
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MiXCR: software for comprehensive adaptive immunity profiling
Bolotin, Dmitriy A, Poslavsky, Stanislav, Mitrophanov, Igor, Shugay, Mikhail, Mamedov, Ilgar Z, Putintseva, Ekaterina V, Chudakov, Dmitriy M
Published in Nature methods (01.05.2015)
Published in Nature methods (01.05.2015)
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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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Fluorescent proteins and their applications in imaging living cells and tissues
Chudakov, Dmitriy M, Matz, Mikhail V, Lukyanov, Sergey, Lukyanov, Konstantin A
Published in Physiological reviews (01.07.2010)
Published in Physiological reviews (01.07.2010)
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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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Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases
Barennes, Pierre, Quiniou, Valentin, Shugay, Mikhail, Egorov, Evgeniy S., Davydov, Alexey N., Chudakov, Dmitriy M., Uddin, Imran, Ismail, Mazlina, Oakes, Theres, Chain, Benny, Eugster, Anne, Kashofer, Karl, Rainer, Peter P., Darko, Samuel, Ransier, Amy, Douek, Daniel C., Klatzmann, David, Mariotti-Ferrandiz, Encarnita
Published in Nature biotechnology (01.02.2021)
Published in Nature biotechnology (01.02.2021)
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VDJdb in 2019: database extension, new analysis infrastructure and a T-cell receptor motif compendium
Bagaev, Dmitry V, Vroomans, Renske M A, Samir, Jerome, Stervbo, Ulrik, Rius, Cristina, Dolton, Garry, Greenshields-Watson, Alexander, Attaf, Meriem, Egorov, Evgeny S, Zvyagin, Ivan V, Babel, Nina, Cole, David K, Godkin, Andrew J, Sewell, Andrew K, Kesmir, Can, Chudakov, Dmitriy M, Luciani, Fabio, Shugay, Mikhail
Published in Nucleic acids research (08.01.2020)
Published in Nucleic acids research (08.01.2020)
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Stability and function of regulatory T cells expressing the transcription factor T-bet
Levine, Andrew G., Mendoza, Alejandra, Hemmers, Saskia, Moltedo, Bruno, Niec, Rachel E., Schizas, Michail, Hoyos, Beatrice E., Putintseva, Ekaterina V., Chaudhry, Ashutosh, Dikiy, Stanislav, Fujisawa, Sho, Chudakov, Dmitriy M., Treuting, Piper M., Rudensky, Alexander Y.
Published in Nature (London) (15.06.2017)
Published in Nature (London) (15.06.2017)
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Clonal selection in the human Vδ1 T cell repertoire indicates γδ TCR-dependent adaptive immune surveillance
Davey, Martin S., Willcox, Carrie R., Joyce, Stephen P., Ladell, Kristin, Kasatskaya, Sofya A., McLaren, James E., Hunter, Stuart, Salim, Mahboob, Mohammed, Fiyaz, Price, David A., Chudakov, Dmitriy M., Willcox, Benjamin E.
Published in Nature communications (01.03.2017)
Published in Nature communications (01.03.2017)
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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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Towards error-free profiling of immune repertoires
Shugay, Mikhail, Britanova, Olga V, Merzlyak, Ekaterina M, Turchaninova, Maria A, Mamedov, Ilgar Z, Tuganbaev, Timur R, Bolotin, Dmitriy A, Staroverov, Dmitry B, Putintseva, Ekaterina V, Plevova, Karla, Linnemann, Carsten, Shagin, Dmitriy, Pospisilova, Sarka, Lukyanov, Sergey, Schumacher, Ton N, Chudakov, Dmitriy M
Published in Nature methods (01.06.2014)
Published in Nature methods (01.06.2014)
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The human Vδ2+ T-cell compartment comprises distinct innate-like Vγ9+ and adaptive Vγ9- subsets
Davey, Martin S., Willcox, Carrie R., Hunter, Stuart, Kasatskaya, Sofya A., Remmerswaal, Ester B. M., Salim, Mahboob, Mohammed, Fiyaz, Bemelman, Frederike J., Chudakov, Dmitriy M., Oo, Ye H., Willcox, Benjamin E.
Published in Nature communications (02.05.2018)
Published in Nature communications (02.05.2018)
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Far-red fluorescent tags for protein imaging in living tissues
Shcherbo, Dmitry, Murphy, Christopher S, Ermakova, Galina V, Solovieva, Elena A, Chepurnykh, Tatiana V, Shcheglov, Aleksandr S, Verkhusha, Vladislav V, Pletnev, Vladimir Z, Hazelwood, Kristin L, Roche, Patrick M, Lukyanov, Sergey, Zaraisky, Andrey G, Davidson, Michael W, Chudakov, Dmitriy M
Published in Biochemical journal (15.03.2009)
Published in Biochemical journal (15.03.2009)
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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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Age-related decrease in TCR repertoire diversity measured with deep and normalized sequence profiling
Britanova, Olga V, Putintseva, Ekaterina V, Shugay, Mikhail, Merzlyak, Ekaterina M, Turchaninova, Maria A, Staroverov, Dmitriy B, Bolotin, Dmitriy A, Lukyanov, Sergey, Bogdanova, Ekaterina A, Mamedov, Ilgar Z, Lebedev, Yuriy B, Chudakov, Dmitriy M
Published in The Journal of immunology (1950) (15.03.2014)
Published in The Journal of immunology (1950) (15.03.2014)
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Two subsets of stem-like CD8+ memory T cell progenitors with distinct fate commitments in humans
Galletti, Giovanni, De Simone, Gabriele, Mazza, Emilia M. C., Puccio, Simone, Mezzanotte, Claudia, Bi, Timothy M., Davydov, Alexey N., Metsger, Maria, Scamardella, Eloise, Alvisi, Giorgia, De Paoli, Federica, Zanon, Veronica, Scarpa, Alice, Camisa, Barbara, Colombo, Federico S., Anselmo, Achille, Peano, Clelia, Polletti, Sara, Mavilio, Domenico, Gattinoni, Luca, Boi, Shannon K., Youngblood, Benjamin A., Jones, Rhiannon E., Baird, Duncan M., Gostick, Emma, Llewellyn-Lacey, Sian, Ladell, Kristin, Price, David A., Chudakov, Dmitriy M., Newell, Evan W., Casucci, Monica, Lugli, Enrico
Published in Nature immunology (01.12.2020)
Published in Nature immunology (01.12.2020)
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VDJdb: a curated database of T-cell receptor sequences with known antigen specificity
Shugay, Mikhail, Bagaev, Dmitriy V, Zvyagin, Ivan V, Vroomans, Renske M, Crawford, Jeremy Chase, Dolton, Garry, Komech, Ekaterina A, Sycheva, Anastasiya L, Koneva, Anna E, Egorov, Evgeniy S, Eliseev, Alexey V, Van Dyk, Ewald, Dash, Pradyot, Attaf, Meriem, Rius, Cristina, Ladell, Kristin, McLaren, James E, Matthews, Katherine K, Clemens, E Bridie, Douek, Daniel C, Luciani, Fabio, van Baarle, Debbie, Kedzierska, Katherine, Kesmir, Can, Thomas, Paul G, Price, David A, Sewell, Andrew K, Chudakov, Dmitriy M
Published in Nucleic acids research (04.01.2018)
Published in Nucleic acids research (04.01.2018)
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Human liver infiltrating γδ T cells are composed of clonally expanded circulating and tissue-resident populations
Hunter, Stuart, Willcox, Carrie R., Davey, Martin S., Kasatskaya, Sofya A., Jeffery, Hannah C., Chudakov, Dmitriy M., Oo, Ye H., Willcox, Benjamin E.
Published in Journal of hepatology (01.09.2018)
Published in Journal of hepatology (01.09.2018)
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