Search Results - "Mitchell, Jacob T."

Multi-omic analyses of changes in the tumor microenvironment of pancreatic adenocarcinoma following neoadjuvant treatment with anti-PD-1 therapy by Li, Keyu, Tandurella, Joseph A., Gai, Jessica, Zhu, Qingfeng, Lim, Su Jin, Thomas, Dwayne L., Xia, Tao, Mo, Guanglan, Mitchell, Jacob T., Montagne, Janelle, Lyman, Melissa, Danilova, Ludmila V., Zimmerman, Jacquelyn W., Kinny-Köster, Benedict, Zhang, Tengyi, Chen, Linda, Blair, Alex B., Heumann, Thatcher, Parkinson, Rose, Durham, Jennifer N., Narang, Amol K., Anders, Robert A., Wolfgang, Christopher L., Laheru, Daniel A., He, Jin, Osipov, Arsen, Thompson, Elizabeth D., Wang, Hao, Fertig, Elana J., Jaffee, Elizabeth M., Zheng, Lei

“…Successful pancreatic ductal adenocarcinoma (PDAC) immunotherapy necessitates optimization and maintenance of activated effector T cells (Teff). We…”
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Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS by Johnson, Jeanette A. I., Tsang, Ashley P., Mitchell, Jacob T., Zhou, David L., Bowden, Julia, Davis-Marcisak, Emily, Sherman, Thomas, Liefeld, Ted, Loth, Melanie, Goff, Loyal A., Zimmerman, Jacquelyn W., Kinny-Köster, Ben, Jaffee, Elizabeth M., Tamayo, Pablo, Mesirov, Jill P., Reich, Michael, Fertig, Elana J., Stein-O’Brien, Genevieve L.

“…Non-negative matrix factorization (NMF) is an unsupervised learning method well suited to high-throughput biology. However, inferring biological processes from…”
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Transfer Learning Reveals Cancer-Associated Fibroblasts Are Associated with Epithelial-Mesenchymal Transition and Inflammation in Cancer Cells in Pancreatic Ductal Adenocarcinoma by Guinn, Samantha, Kinny-Köster, Benedict, Tandurella, Joseph A, Mitchell, Jacob T, Sidiropoulos, Dimitrios N, Loth, Melanie, Lyman, Melissa R, Pucsek, Alexandra B, Zabransky, Daniel J, Lee, Jae W, Kartalia, Emma, Ramani, Mili, Seppälä, Toni T, Cherry, Christopher, Suri, Reecha, Zlomke, Haley, Patel, Jignasha, He, Jin, Wolfgang, Christopher L, Yu, Jun, Zheng, Lei, Ryan, David P, Ting, David T, Kimmelman, Alec, Gupta, Anuj, Danilova, Ludmila, Elisseeff, Jennifer H, Wood, Laura D, Stein-O'Brien, Genevieve, Kagohara, Luciane T, Jaffee, Elizabeth M, Burkhart, Richard A, Fertig, Elana J, Zimmerman, Jacquelyn W

“…Pancreatic ductal adenocarcinoma (PDAC) is an aggressive malignancy characterized by an immunosuppressive tumor microenvironment enriched with…”
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PanIN and CAF transitions in pancreatic carcinogenesis revealed with spatial data integration by Bell, Alexander T F, Mitchell, Jacob T, Kiemen, Ashley L, Lyman, Melissa, Fujikura, Kohei, Lee, Jae W, Coyne, Erin, Shin, Sarah M, Nagaraj, Sushma, Deshpande, Atul, Wu, Pei-Hsun, Sidiropoulos, Dimitrios N, Erbe, Rossin, Stern, Jacob, Chan, Rena, Williams, Stephen, Chell, James M, Ciotti, Lauren, Zimmerman, Jacquelyn W, Wirtz, Denis, Ho, Won Jin, Zaidi, Neeha, Thompson, Elizabeth, Jaffee, Elizabeth M, Wood, Laura D, Fertig, Elana J, Kagohara, Luciane T

“…This study introduces a new imaging, spatial transcriptomics (ST), and single-cell RNA-sequencing integration pipeline to characterize neoplastic cell state…”
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CD4 T cell-activating neoantigens enhance personalized cancer vaccine efficacy by Huff, Amanda L, Longway, Gabriella, Mitchell, Jacob T, Andaloori, Lalitya, Davis-Marcisak, Emily, Chen, Fangluo, Lyman, Melissa R, Wang, Rulin, Mathew, Jocelyn, Barrett, Benjamin, Rahman, Sabahat, Leatherman, James, Yarchoan, Mark, Azad, Nilofer S, Yegnasubramanian, Srinivasan, Kagohara, Luciane T, Fertig, Elana J, Jaffee, Elizabeth M, Armstrong, Todd D, Zaidi, Neeha

“…Personalized cancer vaccines aim to activate and expand cytotoxic antitumor CD8+ T cells to recognize and kill tumor cells. However, the role of CD4+ T cell…”
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Phosphodiesterase-5 inhibition collaborates with vaccine-based immunotherapy to reprogram myeloid cells in pancreatic ductal adenocarcinoma by Gross, Nicole E, Zhang, Zhehao, Mitchell, Jacob T, Charmsaz, Soren, Hernandez, Alexei G, Coyne, Erin M, Shin, Sarah M, Vargas Carvajal, Diana Carolina, Sidiropoulos, Dimitrios N, Cho, Yeonju, Mo, Guanglan, Yuan, Xuan, Cannon, Courtney, Suresh Babu, Jayalaxmi, Lyman, Melissa R, Armstrong, Todd, Kagohara, Luciane T, Bever, Katherine M, Le, Dung T, Jaffee, Elizabeth M, Fertig, Elana J, Ho, Won Jin

“…Pancreatic ductal adenocarcinoma (PDAC) is highly lethal and resistant to immunotherapy. Although immune recognition can be enhanced with immunomodulatory…”
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Abstract 6212: A differential ligand-receptor network inference method to identify alterations in communication between myeloid cells and CD8 T cells in response to PancVAX neo-epitope peptide vaccine, anti-CTLA-4 and anti-PD-1 antibodies in a murine model of pancreatic ductal adenocarcinoma by Mitchell, Jacob T., Deshpande, Atul, Huff, Amanda L., Cherry, Chris, Nagaraj, Sushma, Krishnan, Kavita, Lvovs, Dmitrijs, Elisseeff, Jennifer H., Jaffee, Elizabeth M., Zaidi, Neeha, Fertig, Elana J.

“…Pancreatic Ductal Adenocarcinoma (PDAC) is a deadly cancer with a low tumor mutational burden that leads to the generation of few neo-epitopes derived from…”
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Abstract B071: Antigen-presenting cancer-associated fibroblasts are required for ICI-sensitivity in pancreatic ductal adenocarcinoma by Maru, Saumya, Wetzel, Meredith, Mitchell, Jacob T, Gross, Nicole, Andaloori, Lalitya, Howe, Kathryn, Kartalia, Emma, Mo, Guanglan, Leatherman, James, Ho, Won Jin, Kagohara, Luciane, Fertig, Elana, Pearce, Edward J, Jaffee, Elizabeth M

“…Cancer-associated fibroblasts (CAFs) are a hallmark of many cancers and are particularly prevalent in pancreatic ductal adenocarcinoma (PDAC). This highly…”
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Abstract 5076: Combination PancVAX neo-epitope vaccine with anti-CTLA-4 and anti-PD-1 antibodies enhances infiltration of cytotoxic T cells and mitigates T cell exhaustion in a murine model of pancreatic ductal adenocarcinoma by Mitchell, Jacob T., Huff, Amanda, Davis-Marcisak, Emily, Chen, Fangluo, Armstrong, Todd D., Kagohara, Luciane T., Leatherman, James, Wang, Rulin, Yegnasubramanian, Srinivasan, Jaffee, Elizabeth M., Fertig, Elana J., Zaidi, Neeha

“…Pancreatic ductal adenocarcinoma (PDAC) is a deadly cancer with a low tumor mutational burden and therefore few neoantigen targets that can be recognized by…”
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Abstract B107: Spatial transcriptomics analysis of PanIN reveals loss of pro-inflammatory signaling and the presence of cancer-associated fibroblasts by Bell, Alexander T.F., Mitchell, Jacob T., Kiemen, Ashley L., Lyman, Melissa, Fujikura, Kohei, Lee, Jae W., Coyne, Erin, Shin, Sarah M., Wu, Pei-Hsun, Zimmerman, Jacquelyn W., Wirtz, Denis, Ho, Won J., Zaidi, Neeha, Thompson, Elizabeth, Jaffee, Elizabeth M., Wood, Laura D., Fertig, Elana J., Kagohara, Luciane T.

“…Pancreatic intraepithelial neoplasia (PanIN) is a premalignant lesion that potentially progresses into pancreatic ductal adenocarcinoma (PDAC). Since PanIN…”
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Abstract B032: Spatial proteomics and transcriptomics reveal early immune cell organization in human pancreatic intraepithelial neoplasia by Lyman, Melissa R., Mitchell, Jacob T., Kagohara, Luciane T., Huff, Amanda L., Haldar, Daniel, Shin, Sarah, Guinn, Samantha, Barrett, Benjamin, Longway, Gabriella, Hernandez, Alexei, Coyne, Erin, Yuan, Xuan, Andaloori, Lalitya, Lai, Jiaying, Liu, YunZhou, Karchin, Rachel, Gupta, Anuj, Kiemen, Ashley, Forjaz, André, Wirtz, Denis, Wu, Pei-Hsun, Deshpande, Atul, Armstrong, Todd, Azad, Nilofer S., Thompson, Elizabeth, Anders, Robert, Ho, Won Jin, Jaffee, Elizabeth, Fertig, Elana, Zaidi, Neeha

“…A common precursor of pancreatic adenocarcinoma (PDAC) are microscopic lesions, termed pancreatic intraepithelial neoplasia (or PanIN). These lesions are…”
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Abstract 2873: Evolution of immune cell composition and functionality as pancreatic intraepithelial neoplasia progresses to pancreatic ductal adenocarcinoma by Lyman, Melissa R., Mitchell, Jacob T., Kagohara, Luciane T., Barrett, Benjamin, Huff, Amanda, Shin, Sarah, Longway, Gabriella, Gupta, Anuj, Andaloori, Lalitya, Armstrong, Todd D., Haldar, Daniel, Anders, Robert, Thompson, Elizabeth, Azad, Nilo, Ho, Won Jin, Jaffee, Elizabeth, Fertig, Elana J., Zaidi, Neeha

“…Pancreatic ductal adenocarcinoma (PDAC) is most often diagnosed at an advanced stage. Newly diagnosed patients therefore have a dismal five-year survival rate…”
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Abstract 3241: Single-cell RNA and TCR sequencing of tumor infiltrating lymphocytes identifies changes in pancreatic ductal adenocarcinomas following neoadjuvant treatment with combined anti-PD-1 blocking and anti-CD137 agonist therapy by Tandurella, Joseph A., Mitchell, Jacob T., Montagne, Janelle M., Christenson, Eric, Zhu, Qingfeng, Danilova, Ludmilla V., Favorov, Alexander V., Ho, Won J., Kagohara, Luciane T., Loth, Melanie, Lim, Su Jin, Zheng, Rui, Gai, Jessica, Mitchell, Sarah, Sidiropoulos, Dimitrios N., Hou, Wenpin, Xu, Yao, Wang, Hao, Zimmerman, Jacquelyn W., Yegnasubramanian, Srinivasan, Anders, Robert, Jaffee, Elizabeth M., Zheng, Lei, Fertig, Elana J.

“…Introduction: Pancreatic ductal adenocarcinomas (PDACs) are immunogenically “cold” tumors that lack effector T cell infiltration associated with immune…”
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