Search

Your search keyword '"Saeb Parsy K"' showing total 375 results
Start Over Author "Saeb Parsy K"
375 results on '"Saeb Parsy K"'

4. Spatially resolved multiomics of human cardiac niches

Author

Kanemaru, K., Cranley, J., Muraro, D., Miranda, A.M.A., Ho, S.Y., Wilbrey-Clark, A., Patrick Pett, J., Polanski, K., Richardson, L., Litvinukova, M., Kumasaka, R., Qin, Y., Jablonska, Z., Semprich, C.I., Mach, L., Dabrowska, M., Richoz, R., Bolt, L., Mamanova, L., Kapuge, R., Barnett, S.N., Perera, S., Talavera-López, C., Mulas, I., Mahbubani, K.T., Tuck, Liz, Wang, Lu, Huang, M.M., Prete, M., Pritchard, S., Dark, J., Saeb-Parsy, K., Patel, M., Clatworthy, M.R., Hübner, N., Chowdhury, R.A., Noseda, M., and Teichmann, S.A.

Subjects
Cardiovascular and Metabolic Diseases
Abstract

The function of a cell is defined by its intrinsic characteristics and its niche: the tissue microenvironment in which it dwells. Here we combine single-cell and spatial transcriptomics data to discover cellular niches within eight regions of the human heart. We map cells to microanatomical locations and integrate knowledge-based and unsupervised structural annotations. We also profile the cells of the human cardiac conduction system1. The results revealed their distinctive repertoire of ion channels, G-protein-coupled receptors (GPCRs) and regulatory networks, and implicated FOXP2 in the pacemaker phenotype. We show that the sinoatrial node is compartmentalized, with a core of pacemaker cells, fibroblasts and glial cells supporting glutamatergic signalling. Using a custom CellPhoneDB.org module, we identify trans-synaptic pacemaker cell interactions with glia. We introduce a druggable target prediction tool, drug2cell, which leverages single-cell profiles and drug-target interactions to provide mechanistic insights into the chronotropic effects of drugs, including GLP-1 analogues. In the epicardium, we show enrichment of both IgG+ and IgA+ plasma cells forming immune niches that may contribute to infection defence. Overall, we provide new clarity to cardiac electro-anatomy and immunology, and our suite of computational approaches can be applied to other tissues and organs.

Published
2023

5. Cross-tissue immune cell analysis reveals tissue-specific features in humans

Author

Dominguez Conde, C, Xu, C, Jarvis, L, Rainbow, D, Wells, S, Gomes, T, Howlett, S, Suchanek, O, Polanski, K, King, H, Mamanova, L, Huang, N, Szabo, P, Richardson, L, Bolt, L, Fasouli, E, Mahbubani, K, Prete, M, Tuck, L, Richoz, N, Tuong, Z, Campos, L, Mousa, H, Needham, E, Pritchard, S, Li, T, Elmentaite, R, Park, J, Rahmani, E, Chen, D, Menon, D, Bayraktar, O, James, L, Meyer, K, Yosef, N, Clatworthy, M, Sims, P, Farber, D, Saeb-Parsy, K, Jones, J, Teichmann, S, Dominguez Conde C., Xu C., Jarvis L. B., Rainbow D. B., Wells S. B., Gomes T., Howlett S. K., Suchanek O., Polanski K., King H. W., Mamanova L., Huang N., Szabo P. A., Richardson L., Bolt L., Fasouli E. S., Mahbubani K. T., Prete M., Tuck L., Richoz N., Tuong Z. K., Campos L., Mousa H. S., Needham E. J., Pritchard S., Li T., Elmentaite R., Park J., Rahmani E., Chen D., Menon D. K., Bayraktar O. A., James L. K., Meyer K. B., Yosef N., Clatworthy M. R., Sims P. A., Farber D. L., Saeb-Parsy K., Jones J. L., Teichmann S. A., Dominguez Conde, C, Xu, C, Jarvis, L, Rainbow, D, Wells, S, Gomes, T, Howlett, S, Suchanek, O, Polanski, K, King, H, Mamanova, L, Huang, N, Szabo, P, Richardson, L, Bolt, L, Fasouli, E, Mahbubani, K, Prete, M, Tuck, L, Richoz, N, Tuong, Z, Campos, L, Mousa, H, Needham, E, Pritchard, S, Li, T, Elmentaite, R, Park, J, Rahmani, E, Chen, D, Menon, D, Bayraktar, O, James, L, Meyer, K, Yosef, N, Clatworthy, M, Sims, P, Farber, D, Saeb-Parsy, K, Jones, J, Teichmann, S, Dominguez Conde C., Xu C., Jarvis L. B., Rainbow D. B., Wells S. B., Gomes T., Howlett S. K., Suchanek O., Polanski K., King H. W., Mamanova L., Huang N., Szabo P. A., Richardson L., Bolt L., Fasouli E. S., Mahbubani K. T., Prete M., Tuck L., Richoz N., Tuong Z. K., Campos L., Mousa H. S., Needham E. J., Pritchard S., Li T., Elmentaite R., Park J., Rahmani E., Chen D., Menon D. K., Bayraktar O. A., James L. K., Meyer K. B., Yosef N., Clatworthy M. R., Sims P. A., Farber D. L., Saeb-Parsy K., Jones J. L., and Teichmann S. A.

Abstract

Despite their crucial role in health and disease, our knowledge of immune cells within human tissues remains limited. We surveyed the immune compartment of 16 tissues from 12 adult donors by single-cell RNA sequencing and VDJ sequencing generating a dataset of ~360,000 cells. To systematically resolve immune cell heterogeneity across tissues, we developed CellTypist, a machine learning tool for rapid and precise cell type annotation. Using this approach, combined with detailed curation, we determined the tissue distribution of finely phenotyped immune cell types, revealing hitherto unappreciated tissue-specific features and clonal architecture of T and B cells. Our multitissue approach lays the foundation for identifying highly resolved immune cell types by leveraging a common reference dataset, tissue-integrated expression analysis, and antigen receptor sequencing.

Published
2022

6. scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation

Author

Madissoon, E., Wilbrey-Clark, A., Miragaia, R. J., Saeb-Parsy, K., Mahbubani, K. T., Georgakopoulos, N., Harding, P., Polanski, K., Huang, N., Nowicki-Osuch, K., Fitzgerald, R. C., Loudon, K. W., Ferdinand, J. R., Clatworthy, M. R., Tsingene, A., van Dongen, S., Dabrowska, M., Patel, M., Stubbington, M. J. T., Teichmann, S. A., Stegle, O., and Meyer, K. B.

Published
2019
Full Text
View/download PDF

13. Cross-tissue immune cell analysis reveals tissue-specific features in humans

Author

Domínguez Conde, C., primary, Xu, C., additional, Jarvis, L. B., additional, Rainbow, D. B., additional, Wells, S. B., additional, Gomes, T., additional, Howlett, S. K., additional, Suchanek, O., additional, Polanski, K., additional, King, H. W., additional, Mamanova, L., additional, Huang, N., additional, Szabo, P. A., additional, Richardson, L., additional, Bolt, L., additional, Fasouli, E. S., additional, Mahbubani, K. T., additional, Prete, M., additional, Tuck, L., additional, Richoz, N., additional, Tuong, Z. K., additional, Campos, L., additional, Mousa, H. S., additional, Needham, E. J., additional, Pritchard, S., additional, Li, T., additional, Elmentaite, R., additional, Park, J., additional, Rahmani, E., additional, Chen, D., additional, Menon, D. K., additional, Bayraktar, O. A., additional, James, L. K., additional, Meyer, K. B., additional, Yosef, N., additional, Clatworthy, M. R., additional, Sims, P. A., additional, Farber, D. L., additional, Saeb-Parsy, K., additional, Jones, J. L., additional, and Teichmann, S. A., additional

Published
2022
Full Text
View/download PDF

14. Cross-tissue immune cell analysis reveals tissue-specific features in humans

Author

Conde, CD, 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, Farber, DL, Saeb-Parsy, K, Jones, JL, Teichmann, SA, Conde, CD, 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, Farber, DL, Saeb-Parsy, K, Jones, JL, and Teichmann, SA

Abstract

Despite their crucial role in health and disease, our knowledge of immune cells within human tissues remains limited. We surveyed the immune compartment of 16 tissues from 12 adult donors by single-cell RNA sequencing and VDJ sequencing generating a dataset of ~360,000 cells. To systematically resolve immune cell heterogeneity across tissues, we developed CellTypist, a machine learning tool for rapid and precise cell type annotation. Using this approach, combined with detailed curation, we determined the tissue distribution of finely phenotyped immune cell types, revealing hitherto unappreciated tissue-specific features and clonal architecture of T and B cells. Our multitissue approach lays the foundation for identifying highly resolved immune cell types by leveraging a common reference dataset, tissue-integrated expression analysis, and antigen receptor sequencing.

Published
2022

17. Impact of COVID-19 on the management of ureteric stones in the UK: The COVID Stones study

Author

Byrne, M.H.V., primary, Georgiades, F., additional, Lovegrove, C.E., additional, Klatte, T., additional, Saeb-Parsy, K., additional, Kumar, R., additional, Light, A., additional, Josephine, R., additional, Dominic, C., additional, Kathiravelupillai, S., additional, Howles, S., additional, Stewart, G.D., additional, Turney, B., additional, and Wiseman, O., additional

Published
2022
Full Text
View/download PDF

29. Precancer: Mutant clones in normal epithelium outcompete and eliminate esophageal micro-tumors

Author

Colom, B., primary, Herms, A., additional, Hall, M.W.J., additional, Dentro, S.C., additional, King, C., additional, Sood, R.K., additional, Alcolea, M.P., additional, Piedrafita, G., additional, Fernandez-Antoran, D., additional, Ong, S.H., additional, Fowler, J.C., additional, Mahbubani, K.T., additional, Saeb-Parsy, K., additional, Gerstung, M., additional, Hall, B.A., additional, and Jones, P.H., additional

Published
2021
Full Text
View/download PDF

30. Stone clearance using the EMS Swiss LithoClast® Trilogy: Results of the European multicentre prospective study in comparison to the BAUS national PCNL outcomes on behalf of European Society of UroTechnology

Author

Thakare, N., primary, Tanase, F., additional, Saeb-Parsy, K., additional, Atassi, N., additional, Endriss, R., additional, Kamphuis, G., additional, Pérez-Fentes, D., additional, Hasan, M., additional, Brehmer, M., additional, Osther, P.J., additional, Jung, H., additional, Turney, B., additional, Finch, W., additional, Burgess, N., additional, Irving, S., additional, Dragos, L., additional, Liatsikos, E., additional, Knoll, T., additional, Cauni, V., additional, and Wiseman, O., additional

Published
2021
Full Text
View/download PDF

31. Mitochondria-targeted antioxidant MitoQ ameliorates ischaemia–reperfusion injury in kidney transplantation models

Author

Hamed, M, primary, Logan, A, additional, Gruszczyk, A V, additional, Beach, T E, additional, James, A M, additional, Dare, A J, additional, Barlow, A, additional, Martin, J, additional, Georgakopoulos, N, additional, Gane, A M, additional, Crick, K, additional, Fouto, D, additional, Fear, C, additional, Thiru, S, additional, Dolezalova, N, additional, Ferdinand, J R, additional, Clatworthy, M R, additional, Hosgood, S A, additional, Nicholson, M L, additional, Murphy, M P, additional, and Saeb-Parsy, K, additional

Published
2021
Full Text
View/download PDF

32. SARS-CoV-2 Entry Factors are Highly Expressed in Nasal Epithelial Cells Together with Innate Immune Genes

Author

Sungnak, W., Huang, N., Becavin, C., Berg, M., Queen, R., Litvinukova, M., Talavera-Lopez, C., Maatz, H., Reichart, D., Sampaziotis, F., Worlock, K. B., Yoshida, M., Barnes, J. L., Banovich, N. E., Barbry, P., Brazma, A., Collin, J., Desai, T. J., Duong, T. E., Eickelberg, O., Falk, C., Farzan, M., Glass, I., Gupta, R. K., Haniffa, M., Horvath, P., Hubner, N., Hung, D., Kaminski, N., Krasnow, M., Kropski, J. A., Kuhnemund, M., Lako, M., Lee, H., Leroy, S., Linnarson, S., Lundeberg, J., Meyer, K. B., Miao, Z., Misharin, A. V., Nawijn, M. C., Nikolic, M. Z., Noseda, M., Ordovas-Montanes, J., Oudit, G. Y., Pe'Er, D., Powell, J., Quake, S., Rajagopal, J., Tata, P. R., Rawlins, E. L., Regev, A., Reyfman, P. A., Rozenblatt-Rosen, O., Saeb-Parsy, K., Samakovlis, C., Schiller, H. B., Schultze, J. L., Seibold, M. A., Seidman, C. E., Seidman, J. G., Shalek, A. K., Shepherd, D., Spence, J., Spira, A., Sun, X., Teichmann, S. A., Theis, F. J., Tsankov, A. M., Vallier, L., van den Berge, M., Whitsett, J., Xavier, R., Xu, Y., Zaragosi, L. -E., Zerti, D., Zhang, H., Zhang, K., Rojas, M., Figueiredo, F., Sungnak, Waradon [0000-0002-0136-4960], Bécavin, Christophe [0000-0003-1555-3153], Sampaziotis, Fotios [0000-0003-0812-7586], Yoshida, Masahiro [0000-0002-3521-5322], Apollo - University of Cambridge Repository, Centre National de la Recherche Scientifique (CNRS), Université Côte d'Azur (UCA), Institut de pharmacologie moléculaire et cellulaire (IPMC), Centre National de la Recherche Scientifique (CNRS)-Université Nice Sophia Antipolis (... - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Université Côte d'Azur (UCA), Groningen Research Institute for Asthma and COPD (GRIAC), and Institute for Molecular Medicine Finland

Subjects
PNEUMONIA, 0301 basic medicine, TRANSMISSION, viruses, [SDV]Life Sciences [q-bio], Priming (immunology), PROTEIN, CORONAVIRUS, Biology, medicine.disease_cause, TMPRSS2, CHINA, General Biochemistry, Genetics and Molecular Biology, Article, 03 medical and health sciences, 0302 clinical medicine, Immune system, HCA Lung Biological Network, FUNCTIONAL RECEPTOR, Viral entry, medicine, Receptor, Gene, ComputingMilieux_MISCELLANEOUS, Coronavirus, General Medicine, 3. Good health, WUHAN, 030104 developmental biology, 030220 oncology & carcinogenesis, Immunology, Tissue tropism, 3111 Biomedicine
Abstract

The SARS-CoV-2 coronavirus, the etiologic agent responsible for COVID-19 coronavirus disease, is a global threat. To better understand viral tropism, we assessed the RNA expression of the coronavirus receptor, ACE2, as well as the viral S protein priming protease TMPRSS2 thought to govern viral entry in single-cell RNA-sequencing (scRNA-seq) datasets from healthy individuals generated by the Human Cell Atlas consortium. We found that ACE2, as well as the protease TMPRSS2, are differentially expressed in respiratory and gut epithelial cells. In-depth analysis of epithelial cells in the respiratory tree reveals that nasal epithelial cells, specifically goblet/secretory cells and ciliated cells, display the highest ACE2 expression of all the epithelial cells analyzed. The skewed expression of viral receptors/entry-associated proteins towards the upper airway may be correlated with enhanced transmissivity. Finally, we showed that many of the top genes associated with ACE2 airway epithelial expression are innate immune-associated, antiviral genes, highly enriched in the nasal epithelial cells. This association with immune pathways might have clinical implications for the course of infection and viral pathology, and highlights the specific significance of nasal epithelia in viral infection. Our findings underscore the importance of the availability of the Human Cell Atlas as a reference dataset. In this instance, analysis of the compendium of data points to a particularly relevant role for nasal goblet and ciliated cells as early viral targets and potential reservoirs of SARS-CoV-2 infection. This, in turn, serves as a biological framework for dissecting viral transmission and developing clinical strategies for prevention and therapy.

Published
2020
Full Text
View/download PDF

34. Cells of the human intestinal tract mapped across space and time

Author

Elmentaite, R, Kumasaka, N, Roberts, K, Fleming, A, Dann, E, King, HW, Kleshchevnikov, V, Dabrowska, M, Pritchard, S, Bolt, L, Vieira, SF, Mamanova, L, Huang, N, Perrone, F, Kai'En, IG, Lisgo, SN, Katan, M, Leonard, S, Oliver, TRW, Hook, CE, Nayak, K, Campos, LS, Conde, CD, Stephenson, E, Engelbert, J, Botting, RA, Polanski, K, van Dongen, S, Patel, M, Morgan, MD, Marioni, JC, Bayraktar, OA, Meyer, KB, He, X, Barker, RA, Uhlig, HH, Mahbubani, KT, Saeb-Parsy, K, Zilbauer, M, Clatworthy, MR, Haniffa, M, James, KR, Teichmann, SA, Elmentaite, R, Kumasaka, N, Roberts, K, Fleming, A, Dann, E, King, HW, Kleshchevnikov, V, Dabrowska, M, Pritchard, S, Bolt, L, Vieira, SF, Mamanova, L, Huang, N, Perrone, F, Kai'En, IG, Lisgo, SN, Katan, M, Leonard, S, Oliver, TRW, Hook, CE, Nayak, K, Campos, LS, Conde, CD, Stephenson, E, Engelbert, J, Botting, RA, Polanski, K, van Dongen, S, Patel, M, Morgan, MD, Marioni, JC, Bayraktar, OA, Meyer, KB, He, X, Barker, RA, Uhlig, HH, Mahbubani, KT, Saeb-Parsy, K, Zilbauer, M, Clatworthy, MR, Haniffa, M, James, KR, and Teichmann, SA

Abstract

The cellular landscape of the human intestinal tract is dynamic throughout life, developing in utero and changing in response to functional requirements and environmental exposures. Here, to comprehensively map cell lineages, we use single-cell RNA sequencing and antigen receptor analysis of almost half a million cells from up to 5 anatomical regions in the developing and up to 11 distinct anatomical regions in the healthy paediatric and adult human gut. This reveals the existence of transcriptionally distinct BEST4 epithelial cells throughout the human intestinal tract. Furthermore, we implicate IgG sensing as a function of intestinal tuft cells. We describe neural cell populations in the developing enteric nervous system, and predict cell-type-specific expression of genes associated with Hirschsprung's disease. Finally, using a systems approach, we identify key cell players that drive the formation of secondary lymphoid tissue in early human development. We show that these programs are adopted in inflammatory bowel disease to recruit and retain immune cells at the site of inflammation. This catalogue of intestinal cells will provide new insights into cellular programs in development, homeostasis and disease.

Published
2021

36. Cells of the human intestinal tract mapped across space and time

Author

Elmentaite, R, primary, Kumasaka, N, additional, King, HW, additional, Roberts, K, additional, Dabrowska, M, additional, Pritchard, S, additional, Bolt, L, additional, Vieira, SF, additional, Mamanova, L, additional, Huang, N, additional, Goh Kai’En, I, additional, Stephenson, E, additional, Engelbert, J, additional, Botting, RA, additional, Fleming, A, additional, Dann, E, additional, Lisgo, SN, additional, Katan, M, additional, Leonard, S, additional, Oliver, TRW, additional, Hook, CE, additional, Nayak, K, additional, Perrone, F, additional, Campos, LS, additional, Dominguez-Conde, C, additional, Polanski, K, additional, Van Dongen, S, additional, Patel, M, additional, Morgan, MD, additional, Marioni, JC, additional, Bayraktar, OA, additional, Meyer, KB, additional, Zilbauer, M, additional, Uhlig, H, additional, Clatworthy, MR, additional, Mahbubani, KT, additional, Saeb Parsy, K, additional, Haniffa, M, additional, James, KR, additional, and Teichmann, SA, additional

Published
2021
Full Text
View/download PDF

47. The efficacy and safety of the EMS Lithoclast Trilogy: A European multicenter prospective study on behalf of ESUT

Author

Wiseman, O., primary, Tanse, F., additional, Saeb-Parsy, K., additional, Atassi, N., additional, Endriss, R., additional, Kamphuis, G., additional, Pèrez Fentes, D., additional, Hassan, M., additional, Brehmer, M., additional, Osther, P., additional, Jung, H., additional, Turney, B., additional, Finch, W., additional, Burgess, N., additional, Irving, S., additional, Liatsikos, E., additional, Knoll, T., additional, and Cauni, V., additional

Published
2020
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results