Re(defining) CD4+ T Cell Identities One Cell at a Time

Publications

The IRE1a-XBP1 pathway promotes T helper cell differentiation by resolving secretory stress and accelerating proliferation

Auteurs: Jhuma Pramanik; Xi Chen; Gozde Kar; Tomás Gomes; Johan Henriksson; Zhichao Miao; Kedar Nath Natarajan; McKenzie Anj.; Bidesh Mahata; Sarah A. Teichmann
Publié dans: Genome Medicine, Numéro 5, 2018, ISSN 1756-994X
Éditeur: BioMed Central
DOI: 10.1101/235010

Distinct microbial and immune niches of the human colon

Auteurs: Kylie R. James, Tomas Gomes, Rasa Elmentaite, Nitin Kumar, Emily L. Gulliver, Hamish W. King, Mark D. Stares, Bethany R. Bareham, John R. Ferdinand, Velislava N. Petrova, Krzysztof Polański, Samuel C. Forster, Lorna B. Jarvis, Ondrej Suchanek, Sarah Howlett, Louisa K. James, Joanne L. Jones, Kerstin B. Meyer, Menna R. Clatworthy, Kourosh Saeb-Parsy, Trevor D. Lawley, Sarah A. Teichmann
Publié dans: Nature Immunology, Numéro 21/3, 2020, Page(s) 343-353, ISSN 1529-2908
Éditeur: Nature Publishing Group
DOI: 10.1038/s41590-020-0602-z

Cross-tissue immune cell analysis reveals tissue-specfic features in humans

Auteurs: Domínguez Conde C, Xu C, Jarvis LB, Rainbow DB, Wells SB, Gomes T, Howlett SK, Suchanek O, Polanski K, King HW, Mamanova L, Huang N, Szabo PA, Richardson L, Bolt L, Fasouli ES, Mahbubani KT, Prete M, Tuck L, Richoz N, Tuong ZK, Campos L, Mousa HS, Needham EJ, Pritchard S, Li T, Elmentaite R, Park J, Rahmani E, Chen D, Menon DK, Bayraktar OA, James LK, Meyer KB, Yosef N, Clatworthy MR, Sims PA, Fa
Publié dans: Science, 2022, ISSN 0036-8075
Éditeur: American Association for the Advancement of Science
DOI: 10.1126/science.abl5197

A cell atlas of human thymic development defines T cell repertoire formation.

Auteurs: Jong-Eun Park; Rachel A. Botting; Cecilia Domínguez Conde; Dorin-Mirel Popescu; Marieke Lavaert; Daniel J Kunz; Daniel J Kunz; Daniel J Kunz; Issac Goh; Emily Stephenson; Roberta Ragazzini; Roberta Ragazzini; Elizabeth Tuck; Anna Wilbrey-Clark; Kenny Roberts; Veronika R. Kedlian; John R. Ferdinand; Xiaoling He; Simone Webb; Daniel Maunder; Niels Vandamme; Krishnaa T. Mahbubani; Krzysztof Polanski
Publié dans: Science, Numéro 1, 2020, ISSN 0036-8075
Éditeur: American Association for the Advancement of Science
DOI: 10.1126/science.aay3224

Tumors induce de novo steroid biosynthesis in T cells to evade immunity

Auteurs: Bidesh Mahata; Jhuma Pramanik; Louise van der Weyden; Krzysztof Polanski; Gozde Kar; Angela Riedel; Xi Chen; Nuno A. Fonseca; Kousik Kundu; Lia S. Campos; Edward Ryder; Graham Duddy; Izabela Walczak; Klaus Okkenhaug; David J. Adams; Jacqueline D. Shields; Sarah A. Teichmann
Publié dans: Nature Communications, Numéro 1, 2020, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1101/471359

A rapid and robust method for single cell chromatin accessibility profiling

Auteurs: Chen X, Miragaia RJ, Natarajan KN, Teichmann SA.
Publié dans: Nature Communications, 2018, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-018-07771-0

Transcriptome dynamics of CD4+ T cells during malaria maps gradual transit from effector to memory

Auteurs: Megan S. F. Soon, Hyun Jae Lee, Jessica A. Engel, Jasmin Straube, Bryce S. Thomas, Clara P. S. Pernold, Lachlan S. Clarke, Pawat Laohamonthonkul, Rohit N. Haldar, Cameron G. Williams, Lianne I. M. Lansink, Marcela L. Moreira, Michael Bramhall, Lambros T. Koufariotis, Scott Wood, Xi Chen, Kylie R. James, Tapio Lönnberg, Steven W. Lane, Gabrielle T. Belz, Christian R. Engwerda, David S. Khoury, Mil
Publié dans: Nature Immunology, Numéro 21/12, 2020, Page(s) 1597-1610, ISSN 1529-2908
Éditeur: Nature Publishing Group
DOI: 10.1038/s41590-020-0800-8

CLICK-enabled analogues reveal pregnenolone interactomes in cancer and immune cells

Auteurs: Sougata Roy; Sougata Roy; Sougata Roy; James Sipthorp; Bidesh Mahata; Bidesh Mahata; Bidesh Mahata; Jhuma Pramanik; Jhuma Pramanik; Marco L. Hennrich; Anne-Claude Gavin; Anne-Claude Gavin; Anne-Claude Gavin; Steven V. Ley; Sarah A. Teichmann
Publié dans: iScience, Vol 24, Iss 5, Pp 102485- (2021), Numéro 1, 2021, ISSN 2589-0042
Éditeur: iScience Cell Press
DOI: 10.1101/800649

Genome-wide CRISPR Screens in T Helper Cells Reveal Pervasive Crosstalk between Activation and Differentiation

Auteurs: Johan Henriksson, Xi Chen, Tomás Gomes, Ubaid Ullah, Kerstin B. Meyer, Ricardo Miragaia, Graham Duddy, Jhuma Pramanik, Kosuke Yusa, Riitta Lahesmaa, Sarah A. Teichmann
Publié dans: Cell, Numéro 176/4, 2019, Page(s) 882-896.e18, ISSN 0092-8674
Éditeur: Cell Press
DOI: 10.1016/j.cell.2018.11.044

Single-Cell Transcriptomics of Regulatory T Cells Reveals Trajectories of Tissue Adaptation.

Auteurs: Ricardo J. Miragaia; Tomás Gomes; Agnieszka Chomka; Laura Jardine; Angela Riedel; Ahmed N. Hegazy; Ahmed N. Hegazy; Natasha Whibley; Andrea Tucci; Xi Chen; Ida Lindeman; Guy Emerton; Thomas Krausgruber; Thomas Krausgruber; Jacqueline D. Shields; Muzlifah Haniffa; Fiona Powrie; Fiona Powrie; Sarah A. Teichmann; Sarah A. Teichmann; Sarah A. Teichmann
Publié dans: Immunity, Numéro 9, 2019, ISSN 1074-7613
Éditeur: Cell Press
DOI: 10.1016/j.immuni.2019.01.001

A cell atlas of human thymic development defines T cell repertoire formation

Auteurs: Jong-Eun Park; Rachel A. Botting; Cecilia Domínguez Conde; Dorin-Mirel Popescu; Marieke Lavaert; Daniel J Kunz; Daniel J Kunz; Daniel J Kunz; Emily Stephenson; Roberta Ragazzini; Elizabeth Tuck; Anna Wilbrey-Clark; John R. Ferdinand; Simone Webb; Daniel Maunder; Niels Vandamme; Krishnaa T. Mahbubani; Krzysztof Polanski; Lira Mamanova; Andrew Fuller; Andrew Filby; Gary Reynolds; David Dixon; Kouro
Publié dans: Science, Numéro 9, 2020, ISSN 0036-8075
Éditeur: American Association for the Advancement of Science
DOI: 10.1101/2020.01.28.911115

BraCeR: B-cell-receptor reconstruction and clonality inference from single-cell RNA-seq

Auteurs: Ida Lindeman, Guy Emerton, Lira Mamanova, Omri Snir, Krzysztof Polanski, Shuo-Wang Qiao, Ludvig M. Sollid, Sarah A. Teichmann, Michael J. T. Stubbington
Publié dans: Nature Methods, Numéro 15/8, 2018, Page(s) 563-565, ISSN 1548-7091
Éditeur: Nature Publishing Group
DOI: 10.1038/s41592-018-0082-3

Single-cell RNA-seq and computational analysis using temporal mixture modeling resolves T H 1/T FH fate bifurcation in malaria

Auteurs: Tapio Lönnberg, Valentine Svensson, Kylie R. James, Daniel Fernandez-Ruiz, Ismail Sebina, Ruddy Montandon, Megan S. F. Soon, Lily G. Fogg, Arya Sheela Nair, Urijah N. Liligeto, Michael J. T. Stubbington, Lam-Ha Ly, Frederik Otzen Bagger, Max Zwiessele, Neil D. Lawrence, Fernando Souza-Fonseca-Guimaraes, Patrick T. Bunn, Christian R. Engwerda, William R. Heath, Oliver Billker, Oliver Stegle, Ashra
Publié dans: Science Immunology, Numéro 2/9, 2017, Page(s) eaal2192, ISSN 2470-9468
Éditeur: AAAS
DOI: 10.1126/sciimmunol.aal2192

T cell fate and clonality inference from single-cell transcriptomes

Auteurs: Michael J T Stubbington, Tapio Lönnberg, Valentina Proserpio, Simon Clare, Anneliese O Speak, Gordon Dougan, Sarah A Teichmann
Publié dans: Nature Methods, Numéro 13/4, 2016, Page(s) 329-332, ISSN 1548-7091
Éditeur: Nature Publishing Group
DOI: 10.1038/nmeth.3800

Single-Cell RNA Sequencing Reveals a Dynamic Stromal Niche That Supports Tumor Growth

Auteurs: Sarah Davidson; Mirjana Efremova; Angela Riedel; Bidesh Mahata; Jhuma Pramanik; Jani Huuhtanen; Gozde Kar; Roser Vento-Tormo; Tzachi Hagai; Xi Chen; Muzlifah Haniffa; Jacqueline D. Shields; Sarah A. Teichmann; Sarah A. Teichmann
Publié dans: Cell Reports, Numéro 1, 2020, ISSN 2211-1247
Éditeur: Cell Press
DOI: 10.17863/cam.52009

Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn's Disease.

Auteurs: Rasa Elmentaite; Alexander Ross; Kenny Roberts; Kylie R. James; Daniel Ortmann; Tomás Gomes; Komal Nayak; Liz Tuck; Sophie Pritchard; Omer Ali Bayraktar; Robert Heuschkel; Ludovic Vallier; Sarah A. Teichmann; Sarah A. Teichmann; Sarah A. Teichmann; Matthias Zilbauer
Publié dans: Developmental Cell, Numéro 1, 2020, ISSN 1534-5807
Éditeur: Cell Press
DOI: 10.1016/j.devcel.2020.11.010

Germs and germlines: how “public” B‐cell clones evolve in the gut

Auteurs: Kylie R. James; Hamish W King
Publié dans: Immunology & Cell Biology, Numéro 2, 2020, ISSN 1440-1711
Éditeur: Immunology & Cell Biology
DOI: 10.1111/imcb.12340

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