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198 results on '"Belleau, Pascal"'

1. Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes

Author

Miyabayashi, Koji, Baker, Lindsey A, Deschênes, Astrid, Traub, Benno, Caligiuri, Giuseppina, Plenker, Dennis, Alagesan, Brinda, Belleau, Pascal, Li, Siran, Kendall, Jude, Jang, Gun Ho, Kawaguchi, Risa Karakida, Somerville, Tim DD, Tiriac, Hervé, Hwang, Chang-Il, Burkhart, Richard A, Roberts, Nicholas J, Wood, Laura D, Hruban, Ralph H, Gillis, Jesse, Krasnitz, Alexander, Vakoc, Christopher R, Wigler, Michael, Notta, Faiyaz, Gallinger, Steven, Park, Youngkyu, and Tuveson, David A

Subjects
Rare Diseases, Clinical Research, Cancer, Pancreatic Cancer, Digestive Diseases, 2.1 Biological and endogenous factors, Aetiology, Adenocarcinoma, Animals, Carcinoma, Pancreatic Ductal, Disease Models, Animal, Gene Expression Regulation, Neoplastic, Humans, Mice, Pancreatic Ducts, Prognosis, Oncology and Carcinogenesis
Abstract

Pancreatic ductal adenocarcinoma (PDAC) is the most lethal common malignancy, with little improvement in patient outcomes over the past decades. Recently, subtypes of pancreatic cancer with different prognoses have been elaborated; however, the inability to model these subtypes has precluded mechanistic investigation of their origins. Here, we present a xenotransplantation model of PDAC in which neoplasms originate from patient-derived organoids injected directly into murine pancreatic ducts. Our model enables distinction of the two main PDAC subtypes: intraepithelial neoplasms from this model progress in an indolent or invasive manner representing the classical or basal-like subtypes of PDAC, respectively. Parameters that influence PDAC subtype specification in this intraductal model include cell plasticity and hyperactivation of the RAS pathway. Finally, through intratumoral dissection and the direct manipulation of RAS gene dosage, we identify a suite of RAS-regulated secreted and membrane-bound proteins that may represent potential candidates for therapeutic intervention in patients with PDAC. SIGNIFICANCE: Accurate modeling of the molecular subtypes of pancreatic cancer is crucial to facilitate the generation of effective therapies. We report the development of an intraductal organoid transplantation model of pancreatic cancer that models the progressive switching of subtypes, and identify stochastic and RAS-driven mechanisms that determine subtype specification.See related commentary by Pickering and Morton, p. 1448.This article is highlighted in the In This Issue feature, p. 1426.

Published
2020

2. SOAT1 promotes mevalonate pathway dependency in pancreatic cancer

Author

Oni, Tobiloba E, Biffi, Giulia, Baker, Lindsey A, Hao, Yuan, Tonelli, Claudia, Somerville, Tim DD, Deschênes, Astrid, Belleau, Pascal, Hwang, Chang-il, Sánchez-Rivera, Francisco J, Cox, Hilary, Brosnan, Erin, Doshi, Abhishek, Lumia, Rebecca P, Khaledi, Kimia, Park, Youngkyu, Trotman, Lloyd C, Lowe, Scott W, Krasnitz, Alexander, Vakoc, Christopher R, and Tuveson, David A

Subjects
Rare Diseases, Cancer, Pancreatic Cancer, Digestive Diseases, 2.1 Biological and endogenous factors, Aetiology, Animals, Cell Line, Tumor, Cholesterol, Disease Progression, Humans, Loss of Heterozygosity, Mevalonic Acid, Mice, Inbred C57BL, Models, Biological, Pancreatic Neoplasms, Sterol O-Acyltransferase, Tumor Suppressor Protein p53, Medical and Health Sciences, Immunology
Abstract

Pancreatic ductal adenocarcinoma (PDAC) has a dismal prognosis, and new therapies are needed. Altered metabolism is a cancer vulnerability, and several metabolic pathways have been shown to promote PDAC. However, the changes in cholesterol metabolism and their role during PDAC progression remain largely unknown. Here we used organoid and mouse models to determine the drivers of altered cholesterol metabolism in PDAC and the consequences of its disruption on tumor progression. We identified sterol O-acyltransferase 1 (SOAT1) as a key player in sustaining the mevalonate pathway by converting cholesterol to inert cholesterol esters, thereby preventing the negative feedback elicited by unesterified cholesterol. Genetic targeting of Soat1 impairs cell proliferation in vitro and tumor progression in vivo and reveals a mevalonate pathway dependency in p53 mutant PDAC cells that have undergone p53 loss of heterozygosity (LOH). In contrast, pancreatic organoids lacking p53 mutation and p53 LOH are insensitive to SOAT1 loss, indicating a potential therapeutic window for inhibiting SOAT1 in PDAC.

Published
2020

3. Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts.

Author

Elyada, Ela, Bolisetty, Mohan, Laise, Pasquale, Flynn, William, Courtois, Elise, Burkhart, Richard, Teinor, Jonathan, Belleau, Pascal, Biffi, Giulia, Lucito, Matthew, Sivajothi, Santhosh, Armstrong, Todd, Yu, Kenneth, Hao, Yuan, Wolfgang, Christopher, Park, Youngkyu, Preall, Jonathan, Jaffee, Elizabeth, Califano, Andrea, Robson, Paul, Tuveson, David, and Engle, Dannielle

Subjects
Animals, Antigen Presentation, Cancer-Associated Fibroblasts, Carcinoma, Pancreatic Ductal, Fluorescent Antibody Technique, Histocompatibility Antigens Class II, Humans, Mice, Models, Biological, Pancreatic Neoplasms, Single-Cell Analysis, Tumor Microenvironment
Abstract

Cancer-associated fibroblasts (CAF) are major players in the progression and drug resistance of pancreatic ductal adenocarcinoma (PDAC). CAFs constitute a diverse cell population consisting of several recently described subtypes, although the extent of CAF heterogeneity has remained undefined. Here we use single-cell RNA sequencing to thoroughly characterize the neoplastic and tumor microenvironment content of human and mouse PDAC tumors. We corroborate the presence of myofibroblastic CAFs and inflammatory CAFs and define their unique gene signatures in vivo. Moreover, we describe a new population of CAFs that express MHC class II and CD74, but do not express classic costimulatory molecules. We term this cell population antigen-presenting CAFs and find that they activate CD4+ T cells in an antigen-specific fashion in a model system, confirming their putative immune-modulatory capacity. Our cross-species analysis paves the way for investigating distinct functions of CAF subtypes in PDAC immunity and progression. SIGNIFICANCE: Appreciating the full spectrum of fibroblast heterogeneity in pancreatic ductal adenocarcinoma is crucial to developing therapies that specifically target tumor-promoting CAFs. This work identifies MHC class II-expressing CAFs with a capacity to present antigens to CD4+ T cells, and potentially to modulate the immune response in pancreatic tumors.See related commentary by Belle and DeNardo, p. 1001.This article is highlighted in the In This Issue feature, p. 983.

Published
2019

4. Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer.

Author

Tiriac, Hervé, Belleau, Pascal, Engle, Dannielle D, Plenker, Dennis, Deschênes, Astrid, Somerville, Tim DD, Froeling, Fieke EM, Burkhart, Richard A, Denroche, Robert E, Jang, Gun-Ho, Miyabayashi, Koji, Young, C Megan, Patel, Hardik, Ma, Michelle, LaComb, Joseph F, Palmaira, Randze Lerie D, Javed, Ammar A, Huynh, Jasmine C, Johnson, Molly, Arora, Kanika, Robine, Nicolas, Shah, Minita, Sanghvi, Rashesh, Goetz, Austin B, Lowder, Cinthya Y, Martello, Laura, Driehuis, Else, LeComte, Nicolas, Askan, Gokce, Iacobuzio-Donahue, Christine A, Clevers, Hans, Wood, Laura D, Hruban, Ralph H, Thompson, Elizabeth, Aguirre, Andrew J, Wolpin, Brian M, Sasson, Aaron, Kim, Joseph, Wu, Maoxin, Bucobo, Juan Carlos, Allen, Peter, Sejpal, Divyesh V, Nealon, William, Sullivan, James D, Winter, Jordan M, Gimotty, Phyllis A, Grem, Jean L, DiMaio, Dominick J, Buscaglia, Jonathan M, Grandgenett, Paul M, Brody, Jonathan R, Hollingsworth, Michael A, O'Kane, Grainne M, Notta, Faiyaz, Kim, Edward, Crawford, James M, Devoe, Craig, Ocean, Allyson, Wolfgang, Christopher L, Yu, Kenneth H, Li, Ellen, Vakoc, Christopher R, Hubert, Benjamin, Fischer, Sandra E, Wilson, Julie M, Moffitt, Richard, Knox, Jennifer, Krasnitz, Alexander, Gallinger, Steven, and Tuveson, David A

Subjects
Organoids, Tumor Cells, Cultured, Humans, Pancreatic Neoplasms, Antineoplastic Agents, Drug Screening Assays, Antitumor, Prospective Studies, Gene Expression Profiling, Sequence Analysis, RNA, Gene Expression Regulation, Neoplastic, Drug Resistance, Neoplasm, Gene Regulatory Networks, Molecular Targeted Therapy, Standard of Care, Precision Medicine, Genetics, Pancreatic Cancer, Rare Diseases, Digestive Diseases, Orphan Drug, Cancer, Detection, screening and diagnosis, Development of treatments and therapeutic interventions, 4.1 Discovery and preclinical testing of markers and technologies, 5.1 Pharmaceuticals, Good Health and Well Being, Oncology and Carcinogenesis
Abstract

Pancreatic cancer is the most lethal common solid malignancy. Systemic therapies are often ineffective, and predictive biomarkers to guide treatment are urgently needed. We generated a pancreatic cancer patient-derived organoid (PDO) library that recapitulates the mutational spectrum and transcriptional subtypes of primary pancreatic cancer. New driver oncogenes were nominated and transcriptomic analyses revealed unique clusters. PDOs exhibited heterogeneous responses to standard-of-care chemotherapeutics and investigational agents. In a case study manner, we found that PDO therapeutic profiles paralleled patient outcomes and that PDOs enabled longitudinal assessment of chemosensitivity and evaluation of synchronous metastases. We derived organoid-based gene expression signatures of chemosensitivity that predicted improved responses for many patients to chemotherapy in both the adjuvant and advanced disease settings. Finally, we nominated alternative treatment strategies for chemorefractory PDOs using targeted agent therapeutic profiling. We propose that combined molecular and therapeutic profiling of PDOs may predict clinical response and enable prospective therapeutic selection.Significance: New approaches to prioritize treatment strategies are urgently needed to improve survival and quality of life for patients with pancreatic cancer. Combined genomic, transcriptomic, and therapeutic profiling of PDOs can identify molecular and functional subtypes of pancreatic cancer, predict therapeutic responses, and facilitate precision medicine for patients with pancreatic cancer. Cancer Discov; 8(9); 1112-29. ©2018 AACR.See related commentary by Collisson, p. 1062This article is highlighted in the In This Issue feature, p. 1047.

Published
2018

5. A mucus production programme promotes classical pancreatic ductal adenocarcinoma

Author

Tonelli, Claudia, primary, Yordanov, Georgi N, additional, Hao, Yuan, additional, Deschênes, Astrid, additional, Hinds, Juliene, additional, Belleau, Pascal, additional, Klingbeil, Olaf, additional, Brosnan, Erin, additional, Doshi, Abhishek, additional, Park, Youngkyu, additional, Hruban, Ralph H, additional, Vakoc, Christopher R, additional, Dobin, Alexander, additional, Preall, Jonathan, additional, and Tuveson, David A, additional

Published
2024
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6. Supplementary Figure S7 from Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes

Author

Miyabayashi, Koji, primary, Baker, Lindsey A., primary, Deschênes, Astrid, primary, Traub, Benno, primary, Caligiuri, Giuseppina, primary, Plenker, Dennis, primary, Alagesan, Brinda, primary, Belleau, Pascal, primary, Li, Siran, primary, Kendall, Jude, primary, Jang, Gun Ho, primary, Kawaguchi, Risa Karakida, primary, Somerville, Tim D.D., primary, Tiriac, Hervé, primary, Hwang, Chang-Il, primary, Burkhart, Richard A., primary, Roberts, Nicholas J., primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Gillis, Jesse, primary, Krasnitz, Alexander, primary, Vakoc, Christopher R., primary, Wigler, Michael, primary, Notta, Faiyaz, primary, Gallinger, Steven, primary, Park, Youngkyu, primary, and Tuveson, David A., primary

Published
2023
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7. Data from Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes

Author

Miyabayashi, Koji, primary, Baker, Lindsey A., primary, Deschênes, Astrid, primary, Traub, Benno, primary, Caligiuri, Giuseppina, primary, Plenker, Dennis, primary, Alagesan, Brinda, primary, Belleau, Pascal, primary, Li, Siran, primary, Kendall, Jude, primary, Jang, Gun Ho, primary, Kawaguchi, Risa Karakida, primary, Somerville, Tim D.D., primary, Tiriac, Hervé, primary, Hwang, Chang-Il, primary, Burkhart, Richard A., primary, Roberts, Nicholas J., primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Gillis, Jesse, primary, Krasnitz, Alexander, primary, Vakoc, Christopher R., primary, Wigler, Michael, primary, Notta, Faiyaz, primary, Gallinger, Steven, primary, Park, Youngkyu, primary, and Tuveson, David A., primary

Published
2023
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8. Supplementary Video3 from Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes

Author

Miyabayashi, Koji, primary, Baker, Lindsey A., primary, Deschênes, Astrid, primary, Traub, Benno, primary, Caligiuri, Giuseppina, primary, Plenker, Dennis, primary, Alagesan, Brinda, primary, Belleau, Pascal, primary, Li, Siran, primary, Kendall, Jude, primary, Jang, Gun Ho, primary, Kawaguchi, Risa Karakida, primary, Somerville, Tim D.D., primary, Tiriac, Hervé, primary, Hwang, Chang-Il, primary, Burkhart, Richard A., primary, Roberts, Nicholas J., primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Gillis, Jesse, primary, Krasnitz, Alexander, primary, Vakoc, Christopher R., primary, Wigler, Michael, primary, Notta, Faiyaz, primary, Gallinger, Steven, primary, Park, Youngkyu, primary, and Tuveson, David A., primary

Published
2023
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9. Supplementary Table S13 from Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts

Author

Elyada, Ela, primary, Bolisetty, Mohan, primary, Laise, Pasquale, primary, Flynn, William F., primary, Courtois, Elise T., primary, Burkhart, Richard A., primary, Teinor, Jonathan A., primary, Belleau, Pascal, primary, Biffi, Giulia, primary, Lucito, Matthew S., primary, Sivajothi, Santhosh, primary, Armstrong, Todd D., primary, Engle, Dannielle D., primary, Yu, Kenneth H., primary, Hao, Yuan, primary, Wolfgang, Christopher L., primary, Park, Youngkyu, primary, Preall, Jonathan, primary, Jaffee, Elizabeth M., primary, Califano, Andrea, primary, Robson, Paul, primary, and Tuveson, David A., primary

Published
2023
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10. Table S3 from Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer

Author

Tiriac, Hervé, primary, Belleau, Pascal, primary, Engle, Dannielle D., primary, Plenker, Dennis, primary, Deschênes, Astrid, primary, Somerville, Tim D. D., primary, Froeling, Fieke E. M., primary, Burkhart, Richard A., primary, Denroche, Robert E., primary, Jang, Gun-Ho, primary, Miyabayashi, Koji, primary, Young, C. Megan, primary, Patel, Hardik, primary, Ma, Michelle, primary, LaComb, Joseph F., primary, Palmaira, Randze Lerie D., primary, Javed, Ammar A., primary, Huynh, Jasmine C., primary, Johnson, Molly, primary, Arora, Kanika, primary, Robine, Nicolas, primary, Shah, Minita, primary, Sanghvi, Rashesh, primary, Goetz, Austin B., primary, Lowder, Cinthya Y., primary, Martello, Laura, primary, Driehuis, Else, primary, LeComte, Nicolas, primary, Askan, Gokce, primary, Iacobuzio-Donahue, Christine A., primary, Clevers, Hans, primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Thompson, Elizabeth, primary, Aguirre, Andrew J., primary, Wolpin, Brian M., primary, Sasson, Aaron, primary, Kim, Joseph, primary, Wu, Maoxin, primary, Bucobo, Juan Carlos, primary, Allen, Peter, primary, Sejpal, Divyesh V., primary, Nealon, William, primary, Sullivan, James D., primary, Winter, Jordan M., primary, Gimotty, Phyllis A., primary, Grem, Jean L., primary, DiMaio, Dominick J., primary, Buscaglia, Jonathan M., primary, Grandgenett, Paul M., primary, Brody, Jonathan R., primary, Hollingsworth, Michael A., primary, O'Kane, Grainne M., primary, Notta, Faiyaz, primary, Kim, Edward, primary, Crawford, James M., primary, Devoe, Craig, primary, Ocean, Allyson, primary, Wolfgang, Christopher L., primary, Yu, Kenneth H., primary, Li, Ellen, primary, Vakoc, Christopher R., primary, Hubert, Benjamin, primary, Fischer, Sandra E., primary, Wilson, Julie M., primary, Moffitt, Richard, primary, Knox, Jennifer, primary, Krasnitz, Alexander, primary, Gallinger, Steven, primary, and Tuveson, David A., primary

Published
2023
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11. Data from Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer

Author

Tiriac, Hervé, primary, Belleau, Pascal, primary, Engle, Dannielle D., primary, Plenker, Dennis, primary, Deschênes, Astrid, primary, Somerville, Tim D. D., primary, Froeling, Fieke E. M., primary, Burkhart, Richard A., primary, Denroche, Robert E., primary, Jang, Gun-Ho, primary, Miyabayashi, Koji, primary, Young, C. Megan, primary, Patel, Hardik, primary, Ma, Michelle, primary, LaComb, Joseph F., primary, Palmaira, Randze Lerie D., primary, Javed, Ammar A., primary, Huynh, Jasmine C., primary, Johnson, Molly, primary, Arora, Kanika, primary, Robine, Nicolas, primary, Shah, Minita, primary, Sanghvi, Rashesh, primary, Goetz, Austin B., primary, Lowder, Cinthya Y., primary, Martello, Laura, primary, Driehuis, Else, primary, LeComte, Nicolas, primary, Askan, Gokce, primary, Iacobuzio-Donahue, Christine A., primary, Clevers, Hans, primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Thompson, Elizabeth, primary, Aguirre, Andrew J., primary, Wolpin, Brian M., primary, Sasson, Aaron, primary, Kim, Joseph, primary, Wu, Maoxin, primary, Bucobo, Juan Carlos, primary, Allen, Peter, primary, Sejpal, Divyesh V., primary, Nealon, William, primary, Sullivan, James D., primary, Winter, Jordan M., primary, Gimotty, Phyllis A., primary, Grem, Jean L., primary, DiMaio, Dominick J., primary, Buscaglia, Jonathan M., primary, Grandgenett, Paul M., primary, Brody, Jonathan R., primary, Hollingsworth, Michael A., primary, O'Kane, Grainne M., primary, Notta, Faiyaz, primary, Kim, Edward, primary, Crawford, James M., primary, Devoe, Craig, primary, Ocean, Allyson, primary, Wolfgang, Christopher L., primary, Yu, Kenneth H., primary, Li, Ellen, primary, Vakoc, Christopher R., primary, Hubert, Benjamin, primary, Fischer, Sandra E., primary, Wilson, Julie M., primary, Moffitt, Richard, primary, Knox, Jennifer, primary, Krasnitz, Alexander, primary, Gallinger, Steven, primary, and Tuveson, David A., primary

Published
2023
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12. Supplementary Tables S1, S2, S3, S5, S7, S9, S11, S12, S17, S19, S21 from Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts

Author

Elyada, Ela, primary, Bolisetty, Mohan, primary, Laise, Pasquale, primary, Flynn, William F., primary, Courtois, Elise T., primary, Burkhart, Richard A., primary, Teinor, Jonathan A., primary, Belleau, Pascal, primary, Biffi, Giulia, primary, Lucito, Matthew S., primary, Sivajothi, Santhosh, primary, Armstrong, Todd D., primary, Engle, Dannielle D., primary, Yu, Kenneth H., primary, Hao, Yuan, primary, Wolfgang, Christopher L., primary, Park, Youngkyu, primary, Preall, Jonathan, primary, Jaffee, Elizabeth M., primary, Califano, Andrea, primary, Robson, Paul, primary, and Tuveson, David A., primary

Published
2023
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13. Supplemental Figures from Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer

Author

Tiriac, Hervé, primary, Belleau, Pascal, primary, Engle, Dannielle D., primary, Plenker, Dennis, primary, Deschênes, Astrid, primary, Somerville, Tim D. D., primary, Froeling, Fieke E. M., primary, Burkhart, Richard A., primary, Denroche, Robert E., primary, Jang, Gun-Ho, primary, Miyabayashi, Koji, primary, Young, C. Megan, primary, Patel, Hardik, primary, Ma, Michelle, primary, LaComb, Joseph F., primary, Palmaira, Randze Lerie D., primary, Javed, Ammar A., primary, Huynh, Jasmine C., primary, Johnson, Molly, primary, Arora, Kanika, primary, Robine, Nicolas, primary, Shah, Minita, primary, Sanghvi, Rashesh, primary, Goetz, Austin B., primary, Lowder, Cinthya Y., primary, Martello, Laura, primary, Driehuis, Else, primary, LeComte, Nicolas, primary, Askan, Gokce, primary, Iacobuzio-Donahue, Christine A., primary, Clevers, Hans, primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Thompson, Elizabeth, primary, Aguirre, Andrew J., primary, Wolpin, Brian M., primary, Sasson, Aaron, primary, Kim, Joseph, primary, Wu, Maoxin, primary, Bucobo, Juan Carlos, primary, Allen, Peter, primary, Sejpal, Divyesh V., primary, Nealon, William, primary, Sullivan, James D., primary, Winter, Jordan M., primary, Gimotty, Phyllis A., primary, Grem, Jean L., primary, DiMaio, Dominick J., primary, Buscaglia, Jonathan M., primary, Grandgenett, Paul M., primary, Brody, Jonathan R., primary, Hollingsworth, Michael A., primary, O'Kane, Grainne M., primary, Notta, Faiyaz, primary, Kim, Edward, primary, Crawford, James M., primary, Devoe, Craig, primary, Ocean, Allyson, primary, Wolfgang, Christopher L., primary, Yu, Kenneth H., primary, Li, Ellen, primary, Vakoc, Christopher R., primary, Hubert, Benjamin, primary, Fischer, Sandra E., primary, Wilson, Julie M., primary, Moffitt, Richard, primary, Knox, Jennifer, primary, Krasnitz, Alexander, primary, Gallinger, Steven, primary, and Tuveson, David A., primary

Published
2023
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14. Data from Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts

Author

Elyada, Ela, primary, Bolisetty, Mohan, primary, Laise, Pasquale, primary, Flynn, William F., primary, Courtois, Elise T., primary, Burkhart, Richard A., primary, Teinor, Jonathan A., primary, Belleau, Pascal, primary, Biffi, Giulia, primary, Lucito, Matthew S., primary, Sivajothi, Santhosh, primary, Armstrong, Todd D., primary, Engle, Dannielle D., primary, Yu, Kenneth H., primary, Hao, Yuan, primary, Wolfgang, Christopher L., primary, Park, Youngkyu, primary, Preall, Jonathan, primary, Jaffee, Elizabeth M., primary, Califano, Andrea, primary, Robson, Paul, primary, and Tuveson, David A., primary

Published
2023
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15. Supplementary Table S1-S4 from Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes

Author

Miyabayashi, Koji, primary, Baker, Lindsey A., primary, Deschênes, Astrid, primary, Traub, Benno, primary, Caligiuri, Giuseppina, primary, Plenker, Dennis, primary, Alagesan, Brinda, primary, Belleau, Pascal, primary, Li, Siran, primary, Kendall, Jude, primary, Jang, Gun Ho, primary, Kawaguchi, Risa Karakida, primary, Somerville, Tim D.D., primary, Tiriac, Hervé, primary, Hwang, Chang-Il, primary, Burkhart, Richard A., primary, Roberts, Nicholas J., primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Gillis, Jesse, primary, Krasnitz, Alexander, primary, Vakoc, Christopher R., primary, Wigler, Michael, primary, Notta, Faiyaz, primary, Gallinger, Steven, primary, Park, Youngkyu, primary, and Tuveson, David A., primary

Published
2023
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16. Supplemental Table Legends from Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer

Author

Tiriac, Hervé, primary, Belleau, Pascal, primary, Engle, Dannielle D., primary, Plenker, Dennis, primary, Deschênes, Astrid, primary, Somerville, Tim D. D., primary, Froeling, Fieke E. M., primary, Burkhart, Richard A., primary, Denroche, Robert E., primary, Jang, Gun-Ho, primary, Miyabayashi, Koji, primary, Young, C. Megan, primary, Patel, Hardik, primary, Ma, Michelle, primary, LaComb, Joseph F., primary, Palmaira, Randze Lerie D., primary, Javed, Ammar A., primary, Huynh, Jasmine C., primary, Johnson, Molly, primary, Arora, Kanika, primary, Robine, Nicolas, primary, Shah, Minita, primary, Sanghvi, Rashesh, primary, Goetz, Austin B., primary, Lowder, Cinthya Y., primary, Martello, Laura, primary, Driehuis, Else, primary, LeComte, Nicolas, primary, Askan, Gokce, primary, Iacobuzio-Donahue, Christine A., primary, Clevers, Hans, primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Thompson, Elizabeth, primary, Aguirre, Andrew J., primary, Wolpin, Brian M., primary, Sasson, Aaron, primary, Kim, Joseph, primary, Wu, Maoxin, primary, Bucobo, Juan Carlos, primary, Allen, Peter, primary, Sejpal, Divyesh V., primary, Nealon, William, primary, Sullivan, James D., primary, Winter, Jordan M., primary, Gimotty, Phyllis A., primary, Grem, Jean L., primary, DiMaio, Dominick J., primary, Buscaglia, Jonathan M., primary, Grandgenett, Paul M., primary, Brody, Jonathan R., primary, Hollingsworth, Michael A., primary, O'Kane, Grainne M., primary, Notta, Faiyaz, primary, Kim, Edward, primary, Crawford, James M., primary, Devoe, Craig, primary, Ocean, Allyson, primary, Wolfgang, Christopher L., primary, Yu, Kenneth H., primary, Li, Ellen, primary, Vakoc, Christopher R., primary, Hubert, Benjamin, primary, Fischer, Sandra E., primary, Wilson, Julie M., primary, Moffitt, Richard, primary, Knox, Jennifer, primary, Krasnitz, Alexander, primary, Gallinger, Steven, primary, and Tuveson, David A., primary

Published
2023
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17. Supplementary Method SM1 from Intraductal Transplantation Models of Human Pancreatic Ductal Adenocarcinoma Reveal Progressive Transition of Molecular Subtypes

Author

Miyabayashi, Koji, primary, Baker, Lindsey A., primary, Deschênes, Astrid, primary, Traub, Benno, primary, Caligiuri, Giuseppina, primary, Plenker, Dennis, primary, Alagesan, Brinda, primary, Belleau, Pascal, primary, Li, Siran, primary, Kendall, Jude, primary, Jang, Gun Ho, primary, Kawaguchi, Risa Karakida, primary, Somerville, Tim D.D., primary, Tiriac, Hervé, primary, Hwang, Chang-Il, primary, Burkhart, Richard A., primary, Roberts, Nicholas J., primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Gillis, Jesse, primary, Krasnitz, Alexander, primary, Vakoc, Christopher R., primary, Wigler, Michael, primary, Notta, Faiyaz, primary, Gallinger, Steven, primary, Park, Youngkyu, primary, and Tuveson, David A., primary

Published
2023
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18. Supplementary Figures S1-S8 from Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts

Author

Elyada, Ela, primary, Bolisetty, Mohan, primary, Laise, Pasquale, primary, Flynn, William F., primary, Courtois, Elise T., primary, Burkhart, Richard A., primary, Teinor, Jonathan A., primary, Belleau, Pascal, primary, Biffi, Giulia, primary, Lucito, Matthew S., primary, Sivajothi, Santhosh, primary, Armstrong, Todd D., primary, Engle, Dannielle D., primary, Yu, Kenneth H., primary, Hao, Yuan, primary, Wolfgang, Christopher L., primary, Park, Youngkyu, primary, Preall, Jonathan, primary, Jaffee, Elizabeth M., primary, Califano, Andrea, primary, Robson, Paul, primary, and Tuveson, David A., primary

Published
2023
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19. Supplemental Figure Legends from Organoid Profiling Identifies Common Responders to Chemotherapy in Pancreatic Cancer

Author

Tiriac, Hervé, primary, Belleau, Pascal, primary, Engle, Dannielle D., primary, Plenker, Dennis, primary, Deschênes, Astrid, primary, Somerville, Tim D. D., primary, Froeling, Fieke E. M., primary, Burkhart, Richard A., primary, Denroche, Robert E., primary, Jang, Gun-Ho, primary, Miyabayashi, Koji, primary, Young, C. Megan, primary, Patel, Hardik, primary, Ma, Michelle, primary, LaComb, Joseph F., primary, Palmaira, Randze Lerie D., primary, Javed, Ammar A., primary, Huynh, Jasmine C., primary, Johnson, Molly, primary, Arora, Kanika, primary, Robine, Nicolas, primary, Shah, Minita, primary, Sanghvi, Rashesh, primary, Goetz, Austin B., primary, Lowder, Cinthya Y., primary, Martello, Laura, primary, Driehuis, Else, primary, LeComte, Nicolas, primary, Askan, Gokce, primary, Iacobuzio-Donahue, Christine A., primary, Clevers, Hans, primary, Wood, Laura D., primary, Hruban, Ralph H., primary, Thompson, Elizabeth, primary, Aguirre, Andrew J., primary, Wolpin, Brian M., primary, Sasson, Aaron, primary, Kim, Joseph, primary, Wu, Maoxin, primary, Bucobo, Juan Carlos, primary, Allen, Peter, primary, Sejpal, Divyesh V., primary, Nealon, William, primary, Sullivan, James D., primary, Winter, Jordan M., primary, Gimotty, Phyllis A., primary, Grem, Jean L., primary, DiMaio, Dominick J., primary, Buscaglia, Jonathan M., primary, Grandgenett, Paul M., primary, Brody, Jonathan R., primary, Hollingsworth, Michael A., primary, O'Kane, Grainne M., primary, Notta, Faiyaz, primary, Kim, Edward, primary, Crawford, James M., primary, Devoe, Craig, primary, Ocean, Allyson, primary, Wolfgang, Christopher L., primary, Yu, Kenneth H., primary, Li, Ellen, primary, Vakoc, Christopher R., primary, Hubert, Benjamin, primary, Fischer, Sandra E., primary, Wilson, Julie M., primary, Moffitt, Richard, primary, Knox, Jennifer, primary, Krasnitz, Alexander, primary, Gallinger, Steven, primary, and Tuveson, David A., primary

Published
2023
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21. Supplementary Data from Bioactivation of Napabucasin Triggers Reactive Oxygen Species–Mediated Cancer Cell Death

Author

Froeling, Fieke E.M., primary, Swamynathan, Manojit Mosur, primary, Deschênes, Astrid, primary, Chio, Iok In Christine, primary, Brosnan, Erin, primary, Yao, Melissa A., primary, Alagesan, Priya, primary, Lucito, Matthew, primary, Li, Juying, primary, Chang, An-Yun, primary, Trotman, Lloyd C., primary, Belleau, Pascal, primary, Park, Youngkyu, primary, Rogoff, Harry A., primary, Watson, James D., primary, and Tuveson, David A., primary

Published
2023
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23. Supplementary Figures 1-7 from Bioactivation of Napabucasin Triggers Reactive Oxygen Species–Mediated Cancer Cell Death

Author

Froeling, Fieke E.M., primary, Swamynathan, Manojit Mosur, primary, Deschênes, Astrid, primary, Chio, Iok In Christine, primary, Brosnan, Erin, primary, Yao, Melissa A., primary, Alagesan, Priya, primary, Lucito, Matthew, primary, Li, Juying, primary, Chang, An-Yun, primary, Trotman, Lloyd C., primary, Belleau, Pascal, primary, Park, Youngkyu, primary, Rogoff, Harry A., primary, Watson, James D., primary, and Tuveson, David A., primary

Published
2023
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34. Reproducibility, bioinformatic analysis and power of the SAGE method to evaluate changes in transcriptome

Author

Dinel, Stéphanie, Calvo, Ezequiel Luis, Bolduc, Carl, Belleau, Pascal, Piedboeuf, Bruno, Boivin, André, St-Amand, Jonny, Yoshioka, Mayumi, Labrie, Fernand, Snyder, Eric E., Dinel, Stéphanie, Calvo, Ezequiel Luis, Bolduc, Carl, Belleau, Pascal, Piedboeuf, Bruno, Boivin, André, St-Amand, Jonny, Yoshioka, Mayumi, Labrie, Fernand, and Snyder, Eric E.

Abstract

The serial analysis of gene expression (SAGE) method is used to study global gene expression in cells or tissues in various experimental conditions. However, its reproducibility has not yet been definitively assessed. In this study, we have evaluated the reproducibility of the SAGE method and identified the factors that affect it. The determination coefficient (R2) for the reproducibility of SAGE is 0.96. However, there are some factors that can affect the reproducibility of SAGE, such as the replication of concatemers and ditags, the number of sequenced tags and double PCR amplification of ditags. Thus, corrections for these factors must be made to ensure the reproducibility and accuracy of SAGE results. A bioinformatic analysis of SAGE data is also presented in order to eliminate these artifacts. Finally, the current study shows that increasing the number of sequenced tags improves the power of the method to detect transcripts and their regulation by experimental conditions.

Published
2020

35. Abstract C57: Organoid profiling identifies common responders to chemotherapy in pancreatic cancer

Author

Tiriac, Herve, primary, Belleau, Pascal, additional, Engle, Dannielle, additional, Plenker, Dennis, additional, Deschenes, Astrid, additional, Somerville, Tim, additional, Froeling, Fieke, additional, Moffitt, Richard, additional, Knox, Jennifer, additional, Krasnitz, Alexander, additional, Gallinger, Steven, additional, and Tuveson, David, additional

Published
2019
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36. Bioactivation of Napabucasin Triggers Reactive Oxygen Species–Mediated Cancer Cell Death

Author

Froeling, Fieke E.M., primary, Swamynathan, Manojit Mosur, additional, Deschênes, Astrid, additional, Chio, Iok In Christine, additional, Brosnan, Erin, additional, Yao, Melissa A., additional, Alagesan, Priya, additional, Lucito, Matthew, additional, Li, Juying, additional, Chang, An-Yun, additional, Trotman, Lloyd C., additional, Belleau, Pascal, additional, Park, Youngkyu, additional, Rogoff, Harry A., additional, Watson, James D., additional, and Tuveson, David A., additional

Published
2019
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40. Organoid profiling identifies common responders to chemotherapy in pancreatic cancer

Author

CMM Sectie Molecular Cancer Research, Cancer, Child Health, Regenerative Medicine and Stem Cells, Tiriac, Hervé, Belleau, Pascal, Engle, Dannielle D., Plenker, Dennis, Deschênes, Astrid, Somerville, Tim D.D., Froeling, Fieke E.M., Burkhart, Richard A., Denroche, Robert E., Jang, Gun Ho, Miyabayashi, Koji, Young, C. Megan, Patel, Hardik, Ma, Michelle, Lacomb, Joseph F., Palmaira, Randze Lerie D., Javed, Ammar A., Huynh, Jasmine C., Johnson, Molly, Arora, Kanika, Robine, Nicolas, Shah, Minita, Sanghvi, Rashesh, Goetz, Austin B., Lowder, Cinthya Y., Martello, Laura, Driehuis, Else, Lecomte, Nicolas, Askan, Gokce, Iacobuzio-Donahue, Christine A., Clevers, Hans, Wood, Laura D., Hruban, Ralph H., Thompson, Elizabeth, Aguirre, Andrew J., Wolpin, Brian M., Sasson, Aaron, Kim, Joseph, Wu, Maoxin, Bucobo, Juan Carlos, Allen, Peter, Sejpal, Divyesh V., Nealon, William, Sullivan, James D., Winter, Jordan M., Gimotty, Phyllis A., Grem, Jean L., Dimaio, Dominick J., Buscaglia, Jonathan M., Grandgenett, Paul M., Brody, Jonathan R., Hollingsworth, Michael A., O’kane, Grainne M., Notta, Faiyaz, Kim, Edward, Crawford, James M., Devoe, Craig, Ocean, Allyson, Wolfgang, Christopher L., Yu, Kenneth H., Li, Ellen, Vakoc, Christopher R., Hubert, Benjamin, Fischer, Sandra E., Wilson, Julie M., Moffitt, Richard, Knox, Jennifer, Krasnitz, Alexander, Gallinger, Steven, Tuveson, David A., CMM Sectie Molecular Cancer Research, Cancer, Child Health, Regenerative Medicine and Stem Cells, Tiriac, Hervé, Belleau, Pascal, Engle, Dannielle D., Plenker, Dennis, Deschênes, Astrid, Somerville, Tim D.D., Froeling, Fieke E.M., Burkhart, Richard A., Denroche, Robert E., Jang, Gun Ho, Miyabayashi, Koji, Young, C. Megan, Patel, Hardik, Ma, Michelle, Lacomb, Joseph F., Palmaira, Randze Lerie D., Javed, Ammar A., Huynh, Jasmine C., Johnson, Molly, Arora, Kanika, Robine, Nicolas, Shah, Minita, Sanghvi, Rashesh, Goetz, Austin B., Lowder, Cinthya Y., Martello, Laura, Driehuis, Else, Lecomte, Nicolas, Askan, Gokce, Iacobuzio-Donahue, Christine A., Clevers, Hans, Wood, Laura D., Hruban, Ralph H., Thompson, Elizabeth, Aguirre, Andrew J., Wolpin, Brian M., Sasson, Aaron, Kim, Joseph, Wu, Maoxin, Bucobo, Juan Carlos, Allen, Peter, Sejpal, Divyesh V., Nealon, William, Sullivan, James D., Winter, Jordan M., Gimotty, Phyllis A., Grem, Jean L., Dimaio, Dominick J., Buscaglia, Jonathan M., Grandgenett, Paul M., Brody, Jonathan R., Hollingsworth, Michael A., O’kane, Grainne M., Notta, Faiyaz, Kim, Edward, Crawford, James M., Devoe, Craig, Ocean, Allyson, Wolfgang, Christopher L., Yu, Kenneth H., Li, Ellen, Vakoc, Christopher R., Hubert, Benjamin, Fischer, Sandra E., Wilson, Julie M., Moffitt, Richard, Knox, Jennifer, Krasnitz, Alexander, Gallinger, Steven, and Tuveson, David A.

Published
2018

41. Prostate-Specific genes and their regulation by dihydrotestosterone

Author

Ci, Ma, Ma, Ci, Mayumi, Yoshioka, Yoshioka, Mayumi, André, Boivin, Boivin, André, Pascal, Belleau, Belleau, Pascal, Lin, Gan, Gan, Lin, Yasukazu, Takase, Takase, Yasukazu, Fernand, Labrie, Labrie, Fernand, Jonny, St-Amand, and St-Amand, Jonny

Subjects
Male, medicine.medical_specialty, Transcription, Genetic, medicine.drug_class, Urology, Biology, Transcriptome, Mice, Prostate cancer, Prostate, Cell Line, Tumor, Internal medicine, LNCaP, medicine, Animals, Humans, Serial analysis of gene expression, RNA, Small Interfering, Endoplasmic Reticulum Chaperone BiP, Reverse Transcriptase Polymerase Chain Reaction, Gene Expression Profiling, Computational Biology, Cancer, Dihydrotestosterone, Sequence Analysis, DNA, Androgen, medicine.disease, Mice, Inbred C57BL, Endocrinology, medicine.anatomical_structure, Gene Expression Regulation, Oncology, Cancer research, Female, medicine.drug
Abstract

BACKGROUND Prostate is a well-known androgen-dependent tissue. METHODS By sequencing 4,294,186 serial analysis of gene expression (SAGE) tags, we have investigated the transcriptomes of normal mouse prostate, liver, testis, lung, brain, femur, skin, adipose tissue, skeletal muscle, vagina, ovary, mammary gland, and uterus in order to identify the most abundant and tissue-specific transcripts in the prostate, as well as to target the androgen responsive transcripts specifically regulated in the prostate. Small interference RNA (siRNA) in LNCaP cells was applied to validate the roles of prostate-specific/enriched ARGs in the growth of human prostate cancer cells. RESULTS The most abundant transcripts were involved in prostatic secretion, energy metabolism and immunity. Previously well-known prostate-specific transcripts, including many transcripts involved in prostatic secretion, polyamine biosynthesis and transport, and immunity were specific/enriched in the prostate. Only 22 transcripts among 114 androgen-regulated genes (ARGs) in the mouse prostate were modulated by dihydrotestosterone (DHT) in two or more tissues. The siRNA results showed that inhibition of HSPA5 and MAT2A gene expression repressed growth of human cancer LNCaP cells. Conclusions The current study globally assessed the transcriptome of the prostate and revealed the most abundant and tissue-specific transcripts which are responsible for the unique functions of this organ. These prostate-specific ARGs might be used as targets to develop safe and effective gene-based therapy for the prevention and treatment of prostate cancer. Prostate 68: 241–254, 2008. © 2007 Wiley-Liss, Inc.

Published
2008
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44. Germline copy number variation in theYTHDC2gene: does it have a role in finding a novel potential molecular target involved in pancreatic adenocarcinoma susceptibility?

Author

Fanale, Daniele, primary, Iovanna, Juan Lucio, additional, Calvo, Ezequiel Luis, additional, Berthezene, Patrice, additional, Belleau, Pascal, additional, Dagorn, Jean Charles, additional, Bronte, Giuseppe, additional, Cicero, Giuseppe, additional, Bazan, Viviana, additional, Rolfo, Christian, additional, Santini, Daniele, additional, and Russo, Antonio, additional

Published
2014
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45. Analysis of Germline Gene Copy Number Variants of Patients with Sporadic Pancreatic Adenocarcinoma Reveals Specific Variations

Author

Fanale, Daniele, primary, Iovanna, Juan Lucio, additional, Calvo, Ezequiel Luis, additional, Berthezene, Patrice, additional, Belleau, Pascal, additional, Dagorn, Jean Charles, additional, Ancona, Chiara, additional, Catania, Giovanna, additional, D'Alia, Paolo, additional, Galvano, Antonio, additional, Gulotta, Eliana, additional, Lo Dico, Silvia, additional, Passiglia, Francesco, additional, Bronte, Giuseppe, additional, Midiri, Massimo, additional, Lo Re, Giuseppe, additional, Cicero, Giuseppe, additional, Bazan, Viviana, additional, and Russo, Antonio, additional

Published
2013
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46. Reproducibility, bioinformatic analysis and power of the SAGE method to evaluate changes in transcriptome

Author

Dinel, Stéphanie, Bolduc, Carl, Belleau, Pascal, Boivin, André, Yoshioka, Mayumi, Calvo, Ezequiel Luis, Piedboeuf, Bruno, Snyder, Eric E., Labrie, Fernand, St-Amand, Jonny, Dinel, Stéphanie, Bolduc, Carl, Belleau, Pascal, Boivin, André, Yoshioka, Mayumi, Calvo, Ezequiel Luis, Piedboeuf, Bruno, Snyder, Eric E., Labrie, Fernand, and St-Amand, Jonny

Abstract

The serial analysis of gene expression (SAGE) method is used to study global gene expression in cells or tissues in various experimental conditions. However, its reproducibility has not yet been definitively assessed. In this study, we have evaluated the reproducibility of the SAGE method and identified the factors that affect it. The determination coefficient (R2) for the reproducibility of SAGE is 0.96. However, there are some factors that can affect the reproducibility of SAGE, such as the replication of concatemers and ditags, the number of sequenced tags and double PCR amplification of ditags. Thus, corrections for these factors must be made to ensure the reproducibility and accuracy of SAGE results. A bioinformatic analysis of SAGE data is also presented in order to eliminate these artifacts. Finally, the current study shows that increasing the number of sequenced tags improves the power of the method to detect transcripts and their regulation by experimental conditions.

Published
2005

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