Search

Your search keyword '"Asinovski, Natasha"' showing total 11 results
Start Over Author "Asinovski, Natasha"
11 results on '"Asinovski, Natasha"'

1. Spatially organized multicellular immune hubs in human colorectal cancer.

Author

Pelka, Karin, Hofree, Matan, Chen, Jonathan, Sarkizova, Siranush, Pirl, Joshua, Jorgji, Vjola, Bejnood, Alborz, Dionne, Danielle, Ge, William, Xu, Katherine, Chao, Sherry, Zollinger, Daniel, Lieb, David, Reeves, Jason, Fuhrman, Christopher, Hoang, Margaret, Delorey, Toni, Nguyen, Lan, Waldman, Julia, Klapholz, Max, Wakiro, Isaac, Cohen, Ofir, Albers, Julian, Smillie, Christopher, Cuoco, Michael, Wu, Jingyi, Su, Mei-Ju, Yeung, Jason, Vijaykumar, Brinda, Magnuson, Angela, Asinovski, Natasha, Moll, Tabea, Goder-Reiser, Max, Applebaum, Anise, Brais, Lauren, DelloStritto, Laura, Denning, Sarah, Phillips, Susannah, Hill, Emma, Meehan, Julia, Frederick, Dennie, Sharova, Tatyana, Kanodia, Abhay, Todres, Ellen, Jané-Valbuena, Judit, Biton, Moshe, Izar, Benjamin, Lambden, Conner, Clancy, Thomas, Bleday, Ronald, Melnitchouk, Nelya, Irani, Jennifer, Kunitake, Hiroko, Berger, David, Srivastava, Amitabh, Hornick, Jason, Ogino, Shuji, Rotem, Asaf, Vigneau, Sébastien, Johnson, Bruce, Corcoran, Ryan, Sharpe, Arlene, Kuchroo, Vijay, Ng, Kimmie, Giannakis, Marios, Nieman, Linda, Boland, Genevieve, Aguirre, Andrew, Anderson, Ana, Rozenblatt-Rosen, Orit, Regev, Aviv, and Hacohen, Nir

Subjects
MSI, MSS, anti-tumor immunity, cell-cell interactions, colorectal cancer, mismatch repair-deficient, mismatch repair-proficient, scRNA-seq, spatial, tumor atlas, Bone Morphogenetic Proteins, Cancer-Associated Fibroblasts, Cell Compartmentation, Cell Line, Tumor, Chemokines, Cohort Studies, Colorectal Neoplasms, DNA Mismatch Repair, Endothelial Cells, Gene Expression Regulation, Neoplastic, Humans, Immunity, Inflammation, Monocytes, Myeloid Cells, Neutrophils, Stromal Cells, T-Lymphocytes, Transcription, Genetic
Abstract

Immune responses to cancer are highly variable, with mismatch repair-deficient (MMRd) tumors exhibiting more anti-tumor immunity than mismatch repair-proficient (MMRp) tumors. To understand the rules governing these varied responses, we transcriptionally profiled 371,223 cells from colorectal tumors and adjacent normal tissues of 28 MMRp and 34 MMRd individuals. Analysis of 88 cell subsets and their 204 associated gene expression programs revealed extensive transcriptional and spatial remodeling across tumors. To discover hubs of interacting malignant and immune cells, we identified expression programs in different cell types that co-varied across tumors from affected individuals and used spatial profiling to localize coordinated programs. We discovered a myeloid cell-attracting hub at the tumor-luminal interface associated with tissue damage and an MMRd-enriched immune hub within the tumor, with activated T cells together with malignant and myeloid cells expressing T cell-attracting chemokines. By identifying interacting cellular programs, we reveal the logic underlying spatially organized immune-malignant cell networks.

Published
2021

2. ImmGen at 15

Author

Aguilar, Stephanie Vargas, Aguilar, Oscar, Allan, Rhys, Amir, El Ad David, Angeli, Veronique, Artyomov, Maxim N, Asinovski, Natasha, Astarita, Jilian, Austen, K Frank, Bajpai, Geetika, Barrett, Nora, Baysoy, Alev, Benoist, Christophe, Bellemare-Pelletier, Angelique, Berg, Brad, Best, Adam, Bezman, Natalie, Blair, David, Blander, Julie M, Bogunovic, Milena, Brennan, Patrick, Brenner, Michael, Brown, Brian, Buechler, Matthew, Buenrostro, Jason, Casanova, Maria Acebes, Choi, Kyunghee, Chow, Andrew, Chudnovskiy, Aleksey, Cipoletta, Daniela, Cohen, Nadia, Collins, James J, Colonna, Marco, Cook, Alison, Costello, James, Cremasco, Viviana, Crowl, Ty, Crozat, Karine, Cruse, Richard, D'Angelo, June, Dalod, Marc, Davis, Scott, Demiralp, Cagatay, Deng, Tianda, Desai, Jigar V, Desland, Fiona, Dhainaut, Maxime, Ding, Jiarui, Doedens, Andrew, Dominguez, Claudia, Doran, Graeme, Dress, Regine, Dustin, Michael, Dwyer, Daniel, Dzhagalov, Ivan, Elpek, Kutlu, Ergun, Ayla, Ericson, Jeff, Esomonu, Eunice, Fairfax, Keke, Fletcher, Anne, Frascoli, Michela, Fuchs, Anja, Gainullina, Anastasiia, Gal-Oz, Shani, Gallagher, Michael, Gautier, Emmanuel, Gazit, Roi, Gibbings, Sophie, Giraud, Matthieu, Ginhoux, Florent, Goldrath, Ananda, Gotthardt, Dagmar, Gray, Daniel, Greter, Melanie, Grieshaber-Bouyer, Ricardo, Guilliams, Martin, Haidermota, Sara, Hardy, Randy, Hashimoto, Daigo, Helft, Julie, Hendricks, Deborah, Heng, Tracy, Hill, Jonathan, Hyatt, Gordon, Idoyaga, Juliana, Jakubzick, Claudia, Jarjoura, Jessica, Jepson, Daniel, Jia, Baosen, Jianu, Radu, Johanson, Tim, Jordan, Stefan, Jojic, Vladimir, Kamimura, Yosuke, Kana, Veronica, Kang, Joonsoo, Kapoor, Varun, and Kenigsberg, Ephriam

Subjects
Animals, Gene Expression Regulation, Gene Regulatory Networks, Genomics, History, 21st Century, Immune System, Immunologic Techniques, Mice, Immunological Genome Project, Immunology
Published
2020

3. Intersection of population variation and autoimmunity genetics in human T cell activation

Author

Ye, Chun Jimmie, Feng, Ting, Kwon, Ho-Keun, Raj, Towfique, Wilson, Michael T, Asinovski, Natasha, McCabe, Cristin, Lee, Michelle H, Frohlich, Irene, Paik, Hyun-il, Zaitlen, Noah, Hacohen, Nir, Stranger, Barbara, De Jager, Philip, Mathis, Diane, Regev, Aviv, and Benoist, Christophe

Subjects
Human Genome, Genetics, Clinical Research, Biotechnology, Autoimmune Disease, 2.1 Biological and endogenous factors, Aetiology, Inflammatory and immune system, Asians, Autoimmunity, Blacks, CD4-Positive T-Lymphocytes, Cytokines, Gene Expression Regulation, Genetic Variation, Genome-Wide Association Study, Humans, Lymphocyte Activation, Multigene Family, Quantitative Trait Loci, Th17 Cells, Whites, Asian People, White People, Black People, General Science & Technology
Abstract

T lymphocyte activation by antigen conditions adaptive immune responses and immunopathologies, but we know little about its variation in humans and its genetic or environmental roots. We analyzed gene expression in CD4(+) T cells during unbiased activation or in T helper 17 (T(H)17) conditions from 348 healthy participants representing European, Asian, and African ancestries. We observed interindividual variability, most marked for cytokine transcripts, with clear biases on the basis of ancestry, and following patterns more complex than simple T(H)1/2/17 partitions. We identified 39 genetic loci specifically associated in cis with activated gene expression. We further fine-mapped and validated a single-base variant that modulates YY1 binding and the activity of an enhancer element controlling the autoimmune-associated IL2RA gene, affecting its activity in activated but not regulatory T cells. Thus, interindividual variability affects the fundamental immunologic process of T helper activation, with important connections to autoimmune disease.

Published
2014

4. Polarization of the Effects of Autoimmune and Neurodegenerative Risk Alleles in Leukocytes

Author

Raj, Towfique, Rothamel, Katie, Mostafavi, Sara, Ye, Chun, Lee, Mark N, Replogle, Joseph M, Feng, Ting, Lee, Michelle, Asinovski, Natasha, Frohlich, Irene, Imboywa, Selina, Von Korff, Alina, Okada, Yukinori, Patsopoulos, Nikolaos A, Davis, Scott, McCabe, Cristin, Paik, Hyun-il, Srivastava, Gyan P, Raychaudhuri, Soumya, Hafler, David A, Koller, Daphne, Regev, Aviv, Hacohen, Nir, Mathis, Diane, Benoist, Christophe, Stranger, Barbara E, and De Jager, Philip L

Subjects
Aging, Neurodegenerative, Genetics, Dementia, Acquired Cognitive Impairment, Clinical Research, Brain Disorders, Human Genome, Prevention, Neurosciences, 2.1 Biological and endogenous factors, Aetiology, Inflammatory and immune system, Adaptive Immunity, Alleles, Alzheimer Disease, Autoimmune Diseases, Autoimmunity, CD4-Positive T-Lymphocytes, Ethnicity, Genetic Predisposition to Disease, Genome-Wide Association Study, Humans, Immunity, Innate, Monocytes, Multiple Sclerosis, Neurodegenerative Diseases, Parkinson Disease, Polymorphism, Single Nucleotide, Quantitative Trait Loci, Rheumatic Fever, Transcriptome, General Science & Technology
Abstract

To extend our understanding of the genetic basis of human immune function and dysfunction, we performed an expression quantitative trait locus (eQTL) study of purified CD4(+) T cells and monocytes, representing adaptive and innate immunity, in a multi-ethnic cohort of 461 healthy individuals. Context-specific cis- and trans-eQTLs were identified, and cross-population mapping allowed, in some cases, putative functional assignment of candidate causal regulatory variants for disease-associated loci. We note an over-representation of T cell-specific eQTLs among susceptibility alleles for autoimmune diseases and of monocyte-specific eQTLs among Alzheimer's and Parkinson's disease variants. This polarization implicates specific immune cell types in these diseases and points to the need to identify the cell-autonomous effects of disease susceptibility variants.

Published
2014

6. Network pharmacology of JAK inhibitors

Author

Moodley, Devapregasan, Yoshida, Hideyuki, Mostafavi, Sara, Asinovski, Natasha, Ortiz-Lopez, Adriana, Symanowicz, Peter, Telliez, Jean-Baptiste, Hegen, Martin, Clark, James D., Mathis, Diane, and Benoist, Christophe

Published
2016

7. Interindividual variation in human T regulatory cells

Author

Ferraro, Alessandra, D'Alise, Anna Morena, Raj, Towfique, Asinovski, Natasha, Phillips, Roxanne, Ergun, Ayla, Replogle, Joseph M., Bernier, Angelina, Laffel, Lori, Stranger, Barbara E., De Jager, Philip L., Mathis, Diane, and Benoist, Christophe

Published
2014

9. Multicellular immune hubs and their organization in MMRd and MMRp colorectal cancer

Author

Pelka, Karin, primary, Hofree, Matan, additional, Chen, Jonathan, additional, Sarkizova, Siranush, additional, Pirl, Joshua D., additional, Jorgji, Vjola, additional, Bejnood, Alborz, additional, Dionne, Danielle, additional, Ge, William H., additional, Xu, Katherine H., additional, Chao, Sherry X., additional, Zollinger, Daniel R., additional, Lieb, David J., additional, Reeves, Jason W., additional, Fuhrman, Christopher A., additional, Hoang, Margaret L., additional, Delorey, Toni, additional, Nguyen, Lan T., additional, Waldman, Julia, additional, Klapholz, Max, additional, Wakiro, Isaac, additional, Cohen, Ofir, additional, Smillie, Christopher S., additional, Cuoco, Michael S., additional, Wu, Jingyi, additional, Su, Mei-ju, additional, Yeung, Jason, additional, Vijaykumar, Brinda, additional, Magnuson, Angela M., additional, Asinovski, Natasha, additional, Moll, Tabea, additional, Goder-Reiser, Max N., additional, Applebaum, Anise S., additional, Brais, Lauren K., additional, DelloStritto, Laura K., additional, Denning, Sarah L., additional, Phillips, Susannah T., additional, Hill, Emma K., additional, Meehan, Julia K., additional, Frederick, Dennie T., additional, Sharova, Tatyana, additional, Kanodia, Abhay, additional, Todres, Ellen Z., additional, Jané-Valbuena, Judit, additional, Biton, Moshe, additional, Izar, Benjamin, additional, Lambden, Conner D., additional, Clancy, Thomas E., additional, Bleday, Ronald, additional, Melnitchouk, Nelya, additional, Irani, Jennifer, additional, Kunitake, Hiroko, additional, Berger, David L., additional, Srivastava, Amitabh, additional, Hornick, Jason L., additional, Ogino, Shuji, additional, Rotem, Asaf, additional, Vigneau, Sébastien, additional, Johnson, Bruce E., additional, Corcoran, Ryan, additional, Sharpe, Arlene H., additional, Kuchroo, Vijay K., additional, Ng, Kimmie, additional, Giannakis, Marios, additional, Nieman, Linda T., additional, Boland, Genevieve M., additional, Aguirre, Andrew J., additional, Anderson, Ana C., additional, Rozenblatt-Rosen, Orit, additional, Regev, Aviv, additional, and Hacohen, Nir, additional

Published
2021
Full Text
View/download PDF

10. Identification and validation of a tumor-infiltrating Treg transcriptional signature conserved across species and tumor types.

Author

Kiner, Evgeny, Ergun, Ayla, Asinovski, Natasha, Ortiz-Lopez, Adriana, Paoluzzi-Tomada, Elisa, Mathis, Diane, Benoist, Christophe, Magnuson, Angela M., Kilcoyne, Aoife, Jun Seok Park, and Weissleder, Ralph

Subjects
IMMUNOLOGY, TUMORS, T cells, CANCER, IMMUNOTHERAPY
Abstract

FoxP3+ T regulatory (Treg) cells are central elements of immunologic tolerance. They are abundant in many tumors, where they restrict potentially favorable antitumor responses. We used a three-pronged strategy to identify genes related to the presence and function of Tregs in the tumor microenvironment. Gene expression profiles were generated from tumor-infiltrating Tregs (TITRs) of both human and mouse tumors and were compared with those of Tregs of lymphoid organs or normal tissues from the same individuals. A computational deconvolution of wholetumor datasets from the Cancer Genome Atlas (TCGA) was performed to identify transcripts specifically associated with Tregs across thousands of tumors from different stages and locations. We identified a set of TITR-differential transcripts with striking reproducibility between tumor types in mice, between mice and humans, and between different human patients spanning tumor stages. Many of the TITR-preferential transcripts were shared with "tissue Tregs" residing in nonlymphoid tissues, but a tumorpreferential segment could be identified. Many of these TITR signature transcripts were confirmed by mining of TCGA datasets, which also brought forth transcript modules likely representing the parenchymal attraction of, or response to, tumor Tregs. Importantly, the TITR signature included several genes encoding effective targets of tumor immunotherapy. A number of other targets were validated by CRISPR-based gene inactivation in mouse Tregs. These results confirm the validity of the signature, generating a wealth of leads for understanding the role of Tregs in tumor progression and identifying potential targets for cancer immunotherapy. [ABSTRACT FROM AUTHOR]

Published
2018
Full Text
View/download PDF

11. The Immunological Genome Project: networks of gene expression in immune cells.

Author

Heng, Tracy S P, Painter, Michio W, Elpek, Kutlu, Lukacs-Kornek, Veronika, Mauermann, Nora, Turley, Shannon J, Koller, Daphne, Kim, Francis S, Wagers, Amy J, Asinovski, Natasha, Davis, Scott, Fassett, Marlys, Feuerer, Markus, Gray, Daniel H D, Haxhinasto, Sokol, Hill, Jonathan A, Hyatt, Gordon, Laplace, Catherine, Leatherbee, Kristen, and Mathis, Diane

Abstract

The Immunological Genome Project combines immunology and computational biology laboratories in an effort to establish a complete 'road map' of gene-expression and regulatory networks in all immune cells [ABSTRACT FROM AUTHOR]

Published
2008
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results