Search Results - "naik, Shalin"

Spatial omics and multiplexed imaging to explore cancer biology by Lewis, Sabrina M., Asselin-Labat, Marie-Liesse, Nguyen, Quan, Berthelet, Jean, Tan, Xiao, Wimmer, Verena C., Merino, Delphine, Rogers, Kelly L., Naik, Shalin H.

“…Understanding intratumoral heterogeneity—the molecular variation among cells within a tumor—promises to address outstanding questions in cancer biology and…”
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Steady-state and inflammatory dendritic-cell development by Shortman, Ken, Naik, Shalin H

“…The developmental pathways that lead to the production of antigen-presenting dendritic cells (DCs) are beginning to be understood. These are the last of the…”
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Dendritic cells, monocytes and macrophages: a unified nomenclature based on ontogeny by Guilliams, Martin, Ginhoux, Florent, Jakubzick, Claudia, Naik, Shalin H., Onai, Nobuyuki, Schraml, Barbara U., Segura, Elodie, Tussiwand, Roxane, Yona, Simon

“…Cells of the mononuclear phagocyte system (MPS) are usually defined by particular functional or phenotypical characteristics. However, this has led to…”
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tDCs — a distinct subset with dual functional and developmental roles by Audiger, Cindy, Tomei, Sara, Naik, Shalin H.

“…Confusion exists as to whether transitional dendritic cells are a bone fide subset or just a transitional state, as the name indicates. New data are…”
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Dendritic cell development at a clonal level within a revised ‘continuous’ model of haematopoiesis by Naik, Shalin H.

“…•Evidence that supports that DCs are a separate lineage to myeloid and lymphoid.•Summary of DC development at a clonal level.•Description of single cell…”
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Diverse and heritable lineage imprinting of early haematopoietic progenitors by Naik, Shalin H., Perié, Leïla, Swart, Erwin, Gerlach, Carmen, van Rooij, Nienke, de Boer, Rob J., Schumacher, Ton N.

“…In vivo ‘cellular barcoding’ shows that early haematopoietic progenitors are heterogeneous in the cell types that they produce, and this is partly due to an…”
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scPipe: A flexible R/Bioconductor preprocessing pipeline for single-cell RNA-sequencing data by Tian, Luyi, Su, Shian, Dong, Xueyi, Amann-Zalcenstein, Daniela, Biben, Christine, Seidi, Azadeh, Hilton, Douglas J, Naik, Shalin H, Ritchie, Matthew E

“…Single-cell RNA sequencing (scRNA-seq) technology allows researchers to profile the transcriptomes of thousands of cells simultaneously. Protocols that…”
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Mastering the use of cellular barcoding to explore cancer heterogeneity by Serrano, Antonin, Berthelet, Jean, Naik, Shalin H., Merino, Delphine

“…Tumours are often composed of a multitude of malignant clones that are genomically unique, and only a few of them may have the ability to escape cancer therapy…”
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Death by differentiation: CD4+ T cells kick out suspicious stem cells by Tomei, Sara, Audiger, Cindy, Naik, Shalin H.

“…Antigen presentation is typically regarded as the domain of immune cells such as dendritic cells and B cells. Hernandez-Malmierca et al. (2022) upend this…”
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Lymphoid Tissue and Plasmacytoid Dendritic Cells and Macrophages Do Not Share a Common Macrophage-Dendritic Cell-Restricted Progenitor by Sathe, Priyanka, Metcalf, Donald, Vremec, David, Naik, Shalin H., Langdon, Wallace Y., Huntington, Nicholas D., Wu, Li, Shortman, Ken

“…The relationship between dendritic cells (DCs) and macrophages is often debated. Here we ask whether steady-state, lymphoid-tissue-resident conventional DCs…”
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Deciphering the Innate Lymphoid Cell Transcriptional Program by Seillet, Cyril, Mielke, Lisa A., Amann-Zalcenstein, Daniela B., Su, Shian, Gao, Jerry, Almeida, Francisca F., Shi, Wei, Ritchie, Matthew E., Naik, Shalin H., Huntington, Nicholas D., Carotta, Sebastian, Belz, Gabrielle T.

“…Innate lymphoid cells (ILCs) are enriched at mucosal surfaces, where they provide immune surveillance. All ILC subsets develop from a common progenitor that…”
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Benchmarking single cell RNA-sequencing analysis pipelines using mixture control experiments by Tian, Luyi, Dong, Xueyi, Freytag, Saskia, Lê Cao, Kim-Anh, Su, Shian, JalalAbadi, Abolfazl, Amann-Zalcenstein, Daniela, Weber, Tom S., Seidi, Azadeh, Jabbari, Jafar S., Naik, Shalin H., Ritchie, Matthew E.

“…Single cell RNA-sequencing (scRNA-seq) technology has undergone rapid development in recent years, leading to an explosion in the number of tailored data…”
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Self-Organizing Nebulous Growths for Robust and Incremental Data Visualization by Senanayake, Damith A., Wang, Wei, Naik, Shalin H., Halgamuge, Saman

“…Nonparametric dimensionality reduction techniques, such as t-distributed Stochastic Neighbor Embedding (t-SNE) and uniform manifold approximation and…”
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Demystifying the development of dendritic cell subtypes, a little by Naik, Shalin H

“…The broadest definition of dendritic cells (DCs) is white blood cells that can take up antigen, process it and then present antigen‐derived peptides to…”
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Cellular barcoding: A technical appraisal by Naik, Shalin H, Schumacher, Ton N, Perié, Leïla

“…Cellular barcoding involves the tagging of individual cells of interest with unique genetic heritable identifiers or barcodes and is emerging as a powerful…”
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Non-genetic determinants of malignant clonal fitness at single-cell resolution by Fennell, Katie A., Vassiliadis, Dane, Lam, Enid Y. N., Martelotto, Luciano G., Balic, Jesse J., Hollizeck, Sebastian, Weber, Tom S., Semple, Timothy, Wang, Qing, Miles, Denise C., MacPherson, Laura, Chan, Yih-Chih, Guirguis, Andrew A., Kats, Lev M., Wong, Emily S., Dawson, Sarah-Jane, Naik, Shalin H., Dawson, Mark A.

“…All cancers emerge after a period of clonal selection and subsequent clonal expansion. Although the evolutionary principles imparted by genetic intratumour…”
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Identification of cDC1- and cDC2-committed DC progenitors reveals early lineage priming at the common DC progenitor stage in the bone marrow by Schlitzer, Andreas, Sivakamasundari, V, Chen, Jinmiao, Sumatoh, Hermi Rizal Bin, Schreuder, Jaring, Lum, Josephine, Malleret, Benoit, Zhang, Sanqian, Larbi, Anis, Zolezzi, Francesca, Renia, Laurent, Poidinger, Michael, Naik, Shalin, Newell, Evan W, Robson, Paul, Ginhoux, Florent

“…The progenitor stage of commitment toward the conventional dendritic cell subsets and the transcriptional networks that control it remain poorly understood…”
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Development of plasmacytoid and conventional dendritic cell subtypes from single precursor cells derived in vitro and in vivo by Naik, Shalin H, Shortman, Ken, Sathe, Priyanka, Park, Hae-Young, Metcalf, Donald, Proietto, Anna I, Dakic, Aleksander, Carotta, Sebastian, O'Keeffe, Meredith, Bahlo, Melanie, Papenfuss, Anthony, Kwak, Jong-Young, Wu, Li

“…The development of functionally specialized subtypes of dendritic cells (DCs) can be modeled through the culture of bone marrow with the ligand for the…”
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Clonal selection parallels between normal and cancer tissues by Salavaty, Adrian, Azadian, Esmaeel, Naik, Shalin H., Currie, Peter D.

“…Clonal selection and drift (i.e., proliferation and dominance of some cell clones and extinction of others, respectively) are critical phenomena during both…”
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Differential Development of Murine Dendritic Cells by GM-CSF versus Flt3 Ligand Has Implications for Inflammation and Trafficking by Xu, Yuekang, Zhan, Yifan, Lew, Andrew M, Naik, Shalin H, Kershaw, Michael H

“…To gain ample numbers of dendritic cells (DCs) for investigation, or for immunotherapy, the culture of DC precursors from bone marrow in either GM-CSF and IL-4…”
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