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874 results on '"Nowak, Jonathan A."'

2. Adipose tissue and skeletal muscle wasting precede clinical diagnosis of pancreatic cancer

Author

Babic, Ana, Rosenthal, Michael H., Sundaresan, Tilak K., Khalaf, Natalia, Lee, Valerie, Brais, Lauren K., Loftus, Maureen, Caplan, Leah, Denning, Sarah, Gurung, Anamol, Harrod, Joanna, Schawkat, Khoschy, Yuan, Chen, Wang, Qiao-Li, Lee, Alice A., Biller, Leah H., Yurgelun, Matthew B., Ng, Kimmie, Nowak, Jonathan A., Aguirre, Andrew J., Bhatia, Sangeeta N., Vander Heiden, Matthew G., Van Den Eeden, Stephen K., Caan, Bette J., and Wolpin, Brian M.

Published
2023
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4. Bayesian risk prediction model for colorectal cancer mortality through integration of clinicopathologic and genomic data

Author

Zhao, Melissa, Lau, Mai Chan, Haruki, Koichiro, Väyrynen, Juha P., Gurjao, Carino, Väyrynen, Sara A., Dias Costa, Andressa, Borowsky, Jennifer, Fujiyoshi, Kenji, Arima, Kota, Hamada, Tsuyoshi, Lennerz, Jochen K., Fuchs, Charles S., Nishihara, Reiko, Chan, Andrew T., Ng, Kimmie, Zhang, Xuehong, Meyerhardt, Jeffrey A., Song, Mingyang, Wang, Molin, Giannakis, Marios, Nowak, Jonathan A., Yu, Kun-Hsing, Ugai, Tomotaka, and Ogino, Shuji

Published
2023
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6. Histopathology images predict multi-omics aberrations and prognoses in colorectal cancer patients

Author

Tsai, Pei-Chen, Lee, Tsung-Hua, Kuo, Kun-Chi, Su, Fang-Yi, Lee, Tsung-Lu Michael, Marostica, Eliana, Ugai, Tomotaka, Zhao, Melissa, Lau, Mai Chan, Väyrynen, Juha P., Giannakis, Marios, Takashima, Yasutoshi, Kahaki, Seyed Mousavi, Wu, Kana, Song, Mingyang, Meyerhardt, Jeffrey A., Chan, Andrew T., Chiang, Jung-Hsien, Nowak, Jonathan, Ogino, Shuji, and Yu, Kun-Hsing

Published
2023
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10. Prognostic role of detailed colorectal location and tumor molecular features: analyses of 13,101 colorectal cancer patients including 2994 early-onset cases

Author

Ugai, Tomotaka, Akimoto, Naohiko, Haruki, Koichiro, Harrison, Tabitha A., Cao, Yin, Qu, Conghui, Chan, Andrew T., Campbell, Peter T., Berndt, Sonja I., Buchanan, Daniel D., Cross, Amanda J., Diergaarde, Brenda, Gallinger, Steven J., Gunter, Marc J., Harlid, Sophia, Hidaka, Akihisa, Hoffmeister, Michael, Brenner, Hermann, Chang-Claude, Jenny, Hsu, Li, Jenkins, Mark A., Lin, Yi, Milne, Roger L., Moreno, Victor, Newcomb, Polly A., Nishihara, Reiko, Obon-Santacana, Mireia, Pai, Rish K., Sakoda, Lori C., Schoen, Robert E., Slattery, Martha L., Sun, Wei, Amitay, Efrat L., Alwers, Elizabeth, Thibodeau, Stephen N., Toland, Amanda E., Van Guelpen, Bethany, Zaidi, Syed H., Potter, John D., Meyerhardt, Jeffrey A., Giannakis, Marios, Song, Mingyang, Nowak, Jonathan A., Peters, Ulrike, Phipps, Amanda I., and Ogino, Shuji

Published
2023
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13. Recommendations for Tumor Mutational Burden Assay Validation and Reporting: A Joint Consensus Recommendation of the Association for Molecular Pathology, College of American Pathologists, and Society for Immunotherapy of Cancer

Author

Furtado, Larissa V., primary, Bifulco, Carlo, additional, Dolderer, Daniel, additional, Hsiao, Susan J., additional, Kipp, Benjamin R., additional, Lindeman, Neal I., additional, Ritterhouse, Lauren L., additional, Temple-Smolkin, Robyn L., additional, Zehir, Ahmet, additional, and Nowak, Jonathan A., additional

Published
2024
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16. Helicobacter pylori Seropositivity, ABO Blood Type, and Pancreatic Cancer Risk from 5 Prospective Cohorts

Author

Lee, Alice A., Wang, Qiao-Li, Kim, Jihye, Babic, Ana, Zhang, Xuehong, Perez, Kimberly, Ng, Kimmie, Nowak, Jonathan, Rifazzzzzzzzgi, Nader, Sesso, Howard D., Buring, Julie E., Anderson, Garnet L., Wactawski-Wende, Jean, Wallace, Robert, Manson, JoAnn E., Giovannucci, Edward L., Stampfer, Meir J., Kraft, Peter, Fuchs, Charles S., Yuan, Chen, and Wolpin, Brian M.

Published
2023
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17. Germline genetic regulation of the colorectal tumor immune microenvironment

Author

Schmit, Stephanie L., primary, Tsai, Ya-Yu, additional, Bonner, Joseph D., additional, Sanz-Pamplona, Rebeca, additional, Joshi, Amit D., additional, Ugai, Tomotaka, additional, Lindsey, Sidney S., additional, Melas, Marilena, additional, McDonnell, Kevin J., additional, Idos, Gregory E., additional, Walker, Christopher P., additional, Qu, Chenxu, additional, Kast, W. Martin, additional, Da Silva, Diane M., additional, Glickman, Jonathan N., additional, Chan, Andrew T., additional, Giannakis, Marios, additional, Nowak, Jonathan A., additional, Rennert, Hedy S., additional, Robins, Harlan S., additional, Ogino, Shuji, additional, Greenson, Joel K., additional, Moreno, Victor, additional, Rennert, Gad, additional, and Gruber, Stephen B., additional

Published
2024
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18. Supplemental Table 1 from Epidemiologic Factors in Relation to Colorectal Cancer Risk and Survival by Genotoxic Colibactin Mutational Signature

Author

Thomas, Claire E., primary, Georgeson, Peter, primary, Qu, Conghui, primary, Steinfelder, Robert S., primary, Buchanan, Daniel D., primary, Song, Mingyang, primary, Harrison, Tabitha A., primary, Um, Caroline Y., primary, Hullar, Meredith A., primary, Jenkins, Mark A., primary, Van Guelpen, Bethany, primary, Lynch, Brigid M., primary, Melaku, Yohannes Adama, primary, Huyghe, Jeroen R., primary, Aglago, Elom K., primary, Berndt, Sonja I., primary, Boardman, Lisa A., primary, Campbell, Peter T., primary, Cao, Yin, primary, Chan, Andrew T., primary, Drew, David A., primary, Figueiredo, Jane C., primary, French, Amy J., primary, Giannakis, Marios, primary, Goode, Ellen L., primary, Gruber, Stephen B., primary, Gsur, Andrea, primary, Gunter, Marc J., primary, Hoffmeister, Michael, primary, Hsu, Li, primary, Huang, Wen-Yi, primary, Moreno, Victor, primary, Murphy, Neil, primary, Newcomb, Polly A., primary, Newton, Christina C., primary, Nowak, Jonathan A., primary, Obón-Santacana, Mireia, primary, Ogino, Shuji, primary, Sun, Wei, primary, Toland, Amanda E., primary, Trinh, Quang M., primary, Ugai, Tomotaka, primary, Zaidi, Syed H., primary, Peters, Ulrike, primary, and Phipps, Amanda I., primary

Published
2024
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19. Supplemental Table 2 from Epidemiologic Factors in Relation to Colorectal Cancer Risk and Survival by Genotoxic Colibactin Mutational Signature

Author

Thomas, Claire E., primary, Georgeson, Peter, primary, Qu, Conghui, primary, Steinfelder, Robert S., primary, Buchanan, Daniel D., primary, Song, Mingyang, primary, Harrison, Tabitha A., primary, Um, Caroline Y., primary, Hullar, Meredith A., primary, Jenkins, Mark A., primary, Van Guelpen, Bethany, primary, Lynch, Brigid M., primary, Melaku, Yohannes Adama, primary, Huyghe, Jeroen R., primary, Aglago, Elom K., primary, Berndt, Sonja I., primary, Boardman, Lisa A., primary, Campbell, Peter T., primary, Cao, Yin, primary, Chan, Andrew T., primary, Drew, David A., primary, Figueiredo, Jane C., primary, French, Amy J., primary, Giannakis, Marios, primary, Goode, Ellen L., primary, Gruber, Stephen B., primary, Gsur, Andrea, primary, Gunter, Marc J., primary, Hoffmeister, Michael, primary, Hsu, Li, primary, Huang, Wen-Yi, primary, Moreno, Victor, primary, Murphy, Neil, primary, Newcomb, Polly A., primary, Newton, Christina C., primary, Nowak, Jonathan A., primary, Obón-Santacana, Mireia, primary, Ogino, Shuji, primary, Sun, Wei, primary, Toland, Amanda E., primary, Trinh, Quang M., primary, Ugai, Tomotaka, primary, Zaidi, Syed H., primary, Peters, Ulrike, primary, and Phipps, Amanda I., primary

Published
2024
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20. Data from Epidemiologic Factors in Relation to Colorectal Cancer Risk and Survival by Genotoxic Colibactin Mutational Signature

Author

Thomas, Claire E., primary, Georgeson, Peter, primary, Qu, Conghui, primary, Steinfelder, Robert S., primary, Buchanan, Daniel D., primary, Song, Mingyang, primary, Harrison, Tabitha A., primary, Um, Caroline Y., primary, Hullar, Meredith A., primary, Jenkins, Mark A., primary, Van Guelpen, Bethany, primary, Lynch, Brigid M., primary, Melaku, Yohannes Adama, primary, Huyghe, Jeroen R., primary, Aglago, Elom K., primary, Berndt, Sonja I., primary, Boardman, Lisa A., primary, Campbell, Peter T., primary, Cao, Yin, primary, Chan, Andrew T., primary, Drew, David A., primary, Figueiredo, Jane C., primary, French, Amy J., primary, Giannakis, Marios, primary, Goode, Ellen L., primary, Gruber, Stephen B., primary, Gsur, Andrea, primary, Gunter, Marc J., primary, Hoffmeister, Michael, primary, Hsu, Li, primary, Huang, Wen-Yi, primary, Moreno, Victor, primary, Murphy, Neil, primary, Newcomb, Polly A., primary, Newton, Christina C., primary, Nowak, Jonathan A., primary, Obón-Santacana, Mireia, primary, Ogino, Shuji, primary, Sun, Wei, primary, Toland, Amanda E., primary, Trinh, Quang M., primary, Ugai, Tomotaka, primary, Zaidi, Syed H., primary, Peters, Ulrike, primary, and Phipps, Amanda I., primary

Published
2024
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21. Machine learning links T-cell function and spatial localization to neoadjuvant immunotherapy and clinical outcome in pancreatic cancer

Author

Blise, Katie E., primary, Sivagnanam, Shamilene, additional, Betts, Courtney B., additional, Betre, Konjit, additional, Kirchberger, Nell, additional, Tate, Benjamin J., additional, Furth, Emma E., additional, Dias Costa, Andressa, additional, Nowak, Jonathan A., additional, Wolpin, Brian M., additional, Vonderheide, Robert H., additional, Goecks, Jeremy, additional, Coussens, Lisa M., additional, and Byrne, Katelyn T., additional

Published
2024
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22. Epidemiologic Factors in Relation to Colorectal Cancer Risk and Survival by Genotoxic Colibactin Mutational Signature

Author

Thomas, Claire E., primary, Georgeson, Peter, additional, Qu, Conghui, additional, Steinfelder, Robert S., additional, Buchanan, Daniel D., additional, Song, Mingyang, additional, Harrison, Tabitha A., additional, Um, Caroline Y., additional, Hullar, Meredith A., additional, Jenkins, Mark A., additional, Van Guelpen, Bethany, additional, Lynch, Brigid M., additional, Melaku, Yohannes Adama, additional, Huyghe, Jeroen R., additional, Aglago, Elom K., additional, Berndt, Sonja I., additional, Boardman, Lisa A., additional, Campbell, Peter T., additional, Cao, Yin, additional, Chan, Andrew T., additional, Drew, David A., additional, Figueiredo, Jane C., additional, French, Amy J., additional, Giannakis, Marios, additional, Goode, Ellen L., additional, Gruber, Stephen B., additional, Gsur, Andrea, additional, Gunter, Marc J., additional, Hoffmeister, Michael, additional, Hsu, Li, additional, Huang, Wen-Yi, additional, Moreno, Victor, additional, Murphy, Neil, additional, Newcomb, Polly A., additional, Newton, Christina C., additional, Nowak, Jonathan A., additional, Obón-Santacana, Mireia, additional, Ogino, Shuji, additional, Sun, Wei, additional, Toland, Amanda E., additional, Trinh, Quang M., additional, Ugai, Tomotaka, additional, Zaidi, Syed H., additional, Peters, Ulrike, additional, and Phipps, Amanda I., additional

Published
2024
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23. Data from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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24. Supplementary Table 2 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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25. Supplementary Data 1 from PD-1 Blockade Induces Reactivation of Nonproductive T-Cell Responses Characterized by NF-κB Signaling in Patients with Pancreatic Cancer

Author

Ali, Lestat R., primary, Lenehan, Patrick J., primary, Cardot-Ruffino, Victoire, primary, Dias Costa, Andressa, primary, Katz, Matthew H.G., primary, Bauer, Todd W., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, Abrams, Thomas A., primary, Patel, Anuj, primary, Clancy, Thomas E., primary, Wang, Jiping, primary, Mancias, Joseph D., primary, Reilley, Matthew J., primary, Stucky, Chee-Chee H., primary, Bekaii-Saab, Tanios S., primary, Elias, Rawad, primary, Merchant, Nipun, primary, Slingluff, Craig L., primary, Rahma, Osama E., primary, and Dougan, Stephanie K., primary

Published
2024
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26. Arm B count matrices 4 from PD-1 Blockade Induces Reactivation of Nonproductive T-Cell Responses Characterized by NF-κB Signaling in Patients with Pancreatic Cancer

Author

Ali, Lestat R., primary, Lenehan, Patrick J., primary, Cardot-Ruffino, Victoire, primary, Dias Costa, Andressa, primary, Katz, Matthew H.G., primary, Bauer, Todd W., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, Abrams, Thomas A., primary, Patel, Anuj, primary, Clancy, Thomas E., primary, Wang, Jiping, primary, Mancias, Joseph D., primary, Reilley, Matthew J., primary, Stucky, Chee-Chee H., primary, Bekaii-Saab, Tanios S., primary, Elias, Rawad, primary, Merchant, Nipun, primary, Slingluff, Craig L., primary, Rahma, Osama E., primary, and Dougan, Stephanie K., primary

Published
2024
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27. Data from PD-1 Blockade Induces Reactivation of Nonproductive T-Cell Responses Characterized by NF-κB Signaling in Patients with Pancreatic Cancer

Author

Ali, Lestat R., primary, Lenehan, Patrick J., primary, Cardot-Ruffino, Victoire, primary, Dias Costa, Andressa, primary, Katz, Matthew H.G., primary, Bauer, Todd W., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, Abrams, Thomas A., primary, Patel, Anuj, primary, Clancy, Thomas E., primary, Wang, Jiping, primary, Mancias, Joseph D., primary, Reilley, Matthew J., primary, Stucky, Chee-Chee H., primary, Bekaii-Saab, Tanios S., primary, Elias, Rawad, primary, Merchant, Nipun, primary, Slingluff, Craig L., primary, Rahma, Osama E., primary, and Dougan, Stephanie K., primary

Published
2024
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28. Supplementary Figure 1 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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29. Supplementary Figure 2 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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30. Supplementary Table 3 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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31. Supplementary Figure 3 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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32. Supplementary Table 4 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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33. Supplementary Table 1 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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34. Arm A count matrices 3 from PD-1 Blockade Induces Reactivation of Nonproductive T-Cell Responses Characterized by NF-κB Signaling in Patients with Pancreatic Cancer

Author

Ali, Lestat R., primary, Lenehan, Patrick J., primary, Cardot-Ruffino, Victoire, primary, Dias Costa, Andressa, primary, Katz, Matthew H.G., primary, Bauer, Todd W., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, Abrams, Thomas A., primary, Patel, Anuj, primary, Clancy, Thomas E., primary, Wang, Jiping, primary, Mancias, Joseph D., primary, Reilley, Matthew J., primary, Stucky, Chee-Chee H., primary, Bekaii-Saab, Tanios S., primary, Elias, Rawad, primary, Merchant, Nipun, primary, Slingluff, Craig L., primary, Rahma, Osama E., primary, and Dougan, Stephanie K., primary

Published
2024
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35. Table S1 from PD-1 Blockade Induces Reactivation of Nonproductive T-Cell Responses Characterized by NF-κB Signaling in Patients with Pancreatic Cancer

Author

Ali, Lestat R., primary, Lenehan, Patrick J., primary, Cardot-Ruffino, Victoire, primary, Dias Costa, Andressa, primary, Katz, Matthew H.G., primary, Bauer, Todd W., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, Abrams, Thomas A., primary, Patel, Anuj, primary, Clancy, Thomas E., primary, Wang, Jiping, primary, Mancias, Joseph D., primary, Reilley, Matthew J., primary, Stucky, Chee-Chee H., primary, Bekaii-Saab, Tanios S., primary, Elias, Rawad, primary, Merchant, Nipun, primary, Slingluff, Craig L., primary, Rahma, Osama E., primary, and Dougan, Stephanie K., primary

Published
2024
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36. TCR raw data 2 from PD-1 Blockade Induces Reactivation of Nonproductive T-Cell Responses Characterized by NF-κB Signaling in Patients with Pancreatic Cancer

Author

Ali, Lestat R., primary, Lenehan, Patrick J., primary, Cardot-Ruffino, Victoire, primary, Dias Costa, Andressa, primary, Katz, Matthew H.G., primary, Bauer, Todd W., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, Abrams, Thomas A., primary, Patel, Anuj, primary, Clancy, Thomas E., primary, Wang, Jiping, primary, Mancias, Joseph D., primary, Reilley, Matthew J., primary, Stucky, Chee-Chee H., primary, Bekaii-Saab, Tanios S., primary, Elias, Rawad, primary, Merchant, Nipun, primary, Slingluff, Craig L., primary, Rahma, Osama E., primary, and Dougan, Stephanie K., primary

Published
2024
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37. Supplementary Figure 4 from Neoadjuvant Selicrelumab, an Agonist CD40 Antibody, Induces Changes in the Tumor Microenvironment in Patients with Resectable Pancreatic Cancer

Author

Byrne, Katelyn T., primary, Betts, Courtney B., primary, Mick, Rosemarie, primary, Sivagnanam, Shamilene, primary, Bajor, David L., primary, Laheru, Daniel A., primary, Chiorean, E. Gabriela, primary, O'Hara, Mark H., primary, Liudahl, Shannon M., primary, Newcomb, Craig, primary, Alanio, Cécile, primary, Ferreira, Ana P., primary, Park, Byung S., primary, Ohtani, Takuya, primary, Huffman, Austin P., primary, Väyrynen, Sara A., primary, Dias Costa, Andressa, primary, Kaiser, Judith C., primary, Lacroix, Andreanne M., primary, Redlinger, Colleen, primary, Stern, Martin, primary, Nowak, Jonathan A., primary, Wherry, E. John, primary, Cheever, Martin A., primary, Wolpin, Brian M., primary, Furth, Emma E., primary, Jaffee, Elizabeth M., primary, Coussens, Lisa M., primary, and Vonderheide, Robert H., primary

Published
2024
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38. Identifying colorectal cancer caused by biallelic MUTYH pathogenic variants using tumor mutational signatures

Author

Georgeson, Peter, Harrison, Tabitha A., Pope, Bernard J., Zaidi, Syed H., Qu, Conghui, Steinfelder, Robert S., Lin, Yi, Joo, Jihoon E., Mahmood, Khalid, Clendenning, Mark, Walker, Romy, Amitay, Efrat L., Berndt, Sonja I., Brenner, Hermann, Campbell, Peter T., Cao, Yin, Chan, Andrew T., Chang-Claude, Jenny, Doheny, Kimberly F., Drew, David A., Figueiredo, Jane C., French, Amy J., Gallinger, Steven, Giannakis, Marios, Giles, Graham G., Gsur, Andrea, Gunter, Marc J., Hoffmeister, Michael, Hsu, Li, Huang, Wen-Yi, Limburg, Paul, Manson, JoAnn E., Moreno, Victor, Nassir, Rami, Nowak, Jonathan A., Obón-Santacana, Mireia, Ogino, Shuji, Phipps, Amanda I., Potter, John D., Schoen, Robert E., Sun, Wei, Toland, Amanda E., Trinh, Quang M., Ugai, Tomotaka, Macrae, Finlay A., Rosty, Christophe, Hudson, Thomas J., Jenkins, Mark A., Thibodeau, Stephen N., Winship, Ingrid M., Peters, Ulrike, and Buchanan, Daniel D.

Published
2022
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39. Smoking and colorectal cancer survival in relation to tumor LINE-1 methylation levels: a prospective cohort study

Author

Kishikawa, Junko, Ugai, Tomotaka, Fujiyoshi, Kenji, Chen, Yang, Haruki, Koichiro, Liu, Li, Arima, Kota, Akimoto, Naohiko, Hamada, Tsuyoshi, Inamura, Kentaro, Kosumi, Keisuke, Twombly, Tyler S., Shi, Shanshan, Lau, Mai Chan, Du, Chunxia, Li, Peilong, Guo, Chunguang, Väyrynen, Juha P., Väyrynen, Sara A., Gu, Simeng, Song, Mingyang, Zhang, Xuehong, Dai, Guanghai, Giannakis, Marios, Drew, David A., Chan, Andrew T., Fuchs, Charles S., Meyerhardt, Jeffrey A., Nishihara, Reiko, Nowak, Jonathan A., Ogino, Shuji, and Wu, Kana

Published
2022
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40. Immune cell profiles in the tumor microenvironment of early-onset, intermediate-onset, and later-onset colorectal cancer

Author

Ugai, Tomotaka, Väyrynen, Juha P., Lau, Mai Chan, Borowsky, Jennifer, Akimoto, Naohiko, Väyrynen, Sara A., Zhao, Melissa, Zhong, Rong, Haruki, Koichiro, Dias Costa, Andressa, Fujiyoshi, Kenji, Arima, Kota, Wu, Kana, Chan, Andrew T., Cao, Yin, Song, Mingyang, Fuchs, Charles S., Wang, Molin, Lennerz, Jochen K., Ng, Kimmie, Meyerhardt, Jeffrey A., Giannakis, Marios, Nowak, Jonathan A., and Ogino, Shuji

Published
2022
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41. Programmatic Precision Oncology Decision Support for Patients With Gastrointestinal Cancer

Author

Keller, Rachel B., Mazor, Tali, Sholl, Lynette, Aguirre, Andrew J., Singh, Harshabad, Sethi, Nilay, Bass, Adam, Nagaraja, Ankur K., Brais, Lauren K., Hill, Emma, Hennessey, Connor, Cusick, Margaret, Del Vecchio Fitz, Catherine, Zwiesler, Zachary, Siegel, Ethan, Ovalle, Andrea, Trukhanov, Pavel, Hansel, Jason, Shapiro, Geoffrey I., Abrams, Thomas A., Biller, Leah H., Chan, Jennifer A., Cleary, James M., Corsello, Steven M., Enzinger, Andrea C., Enzinger, Peter C., Mayer, Robert J., McCleary, Nadine J., Meyerhardt, Jeffrey A., Ng, Kimmie, Patel, Anuj K., Perez, Kimberley J., Rahma, Osama E., Rubinson, Douglas A., Wisch, Jeffrey S., Yurgelun, Matthew B., Hassett, Michael J., MacConaill, Laura, Schrag, Deborah, Cerami, Ethan, Wolpin, Brian M., Nowak, Jonathan A., and Giannakis, Marios

Published
2023
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42. Genetic mechanisms of immune evasion in colorectal cancer

Author

Grasso, Catherine S, Giannakis, Marios, Wells, Daniel K, Hamada, Tsuyoshi, Mu, Xinmeng Jasmine, Quist, Michael, Nowak, Jonathan A, Nishihara, Reiko, Qian, Zhi Rong, Inamura, Kentaro, Morikawa, Teppei, Nosho, Katsuhiko, Abril-Rodriguez, Gabriel, Connolly, Charles, Escuin-Ordinas, Helena, Geybels, Milan S, Grady, William M, Hsu, Li, Hu-Lieskovan, Siwen, Huyghe, Jeroen R, Kim, Yeon Joo, Krystofinski, Paige, Leiserson, Mark DM, Montoya, Dennis J, Nadel, Brian B, Pellegrini, Matteo, Pritchard, Colin C, Puig-Saus, Cristina, Quist, Elleanor H, Raphael, Ben J, Salipante, Stephen J, Shin, Daniel Sanghoon, Shinbrot, Eve, Shirts, Brian, Shukla, Sachet, Stanford, Janet L, Sun, Wei, Tsoi, Jennifer, Upfill-Brown, Alexander, Wheeler, David A, Wu, Catherine J, Yu, Ming, Zaidi, Syed H, Zaretsky, Jesse M, Gabriel, Stacey B, Lander, Eric S, Garraway, Levi A, Hudson, Thomas J, Fuchs, Charles S, Ribas, Antoni, Ogino, Shuji, and Peters, Ulrike

Subjects
Biomedical and Clinical Sciences, Oncology and Carcinogenesis, Immunology, Genetic Testing, Digestive Diseases, Cancer, Colo-Rectal Cancer, Genetics, Aetiology, 2.1 Biological and endogenous factors, Colorectal Neoplasms, DNA Copy Number Variations, DNA Methylation, Germ-Line Mutation, HLA Antigens, Humans, Loss of Heterozygosity, Microsatellite Instability, Tumor Escape, Wnt Signaling Pathway, beta 2-Microglobulin, Biochemistry and cell biology, Oncology and carcinogenesis
Abstract

To understand the genetic drivers of immune recognition and evasion in colorectal cancer, we analyzed 1,211 colorectal cancer primary tumor samples, including 179 classified as microsatellite instability-high (MSI-high). This set includes The Cancer Genome Atlas colorectal cancer cohort of 592 samples, completed and analyzed here. MSI-high, a hypermutated, immunogenic subtype of colorectal cancer, had a high rate of significantly mutated genes in important immune-modulating pathways and in the antigen presentation machinery, including biallelic losses of B2M and HLA genes due to copy-number alterations and copy-neutral loss of heterozygosity. WNT/β-catenin signaling genes were significantly mutated in all colorectal cancer subtypes, and activated WNT/β-catenin signaling was correlated with the absence of T-cell infiltration. This large-scale genomic analysis of colorectal cancer demonstrates that MSI-high cases frequently undergo an immunoediting process that provides them with genetic events allowing immune escape despite high mutational load and frequent lymphocytic infiltration and, furthermore, that colorectal cancer tumors have genetic and methylation events associated with activated WNT signaling and T-cell exclusion.Significance: This multi-omic analysis of 1,211 colorectal cancer primary tumors reveals that it should be possible to better monitor resistance in the 15% of cases that respond to immune blockade therapy and also to use WNT signaling inhibitors to reverse immune exclusion in the 85% of cases that currently do not. Cancer Discov; 8(6); 730-49. ©2018 AACR.This article is highlighted in the In This Issue feature, p. 663.

Published
2018

43. Cancer Diagnoses After Recent Weight Loss

Author

Wang, Qiao-Li, primary, Babic, Ana, additional, Rosenthal, Michael H., additional, Lee, Alice A., additional, Zhang, Yin, additional, Zhang, Xuehong, additional, Song, Mingyang, additional, Rezende, Leandro F. M., additional, Lee, Dong Hoon, additional, Biller, Leah, additional, Ng, Kimmie, additional, Giannakis, Marios, additional, Chan, Andrew T., additional, Meyerhardt, Jeffrey A., additional, Fuchs, Charles S., additional, Eliassen, A. Heather, additional, Birmann, Brenda M., additional, Stampfer, Meir J., additional, Giovannucci, Edward L., additional, Kraft, Peter, additional, Nowak, Jonathan A., additional, Yuan, Chen, additional, and Wolpin, Brian M., additional

Published
2024
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44. Abstract A093: Deciphering acquired resistance to KRASG12D inhibition in a mouse model of pancreatic ductal adenocarcinoma

Author

Dilly, Julien, primary, Abbassi, Laleh, additional, Hennessey, Connor J., additional, Uribe, Giselle A., additional, Parent, Brendan, additional, Yang, Annan, additional, Kapner, Kevin S., additional, Li, Ziyue, additional, Dasgupta, Shatavisha, additional, Jordan, Alexander, additional, Hoffman, Megan T., additional, Qiang, Li, additional, Hambitzer, Felix P., additional, Chugh, Seema, additional, Shalek, Alex K., additional, Dougan, Stephanie K., additional, Wolpin, Brian M., additional, Nowak, Jonathan A., additional, Raghavan, Srivatsan, additional, Winter, Peter S., additional, and Aguirre, Andrew J., additional

Published
2024
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45. Abstract A035: Stromal composition, fibroblast heterogeneity and spatial organization in pancreatic adenocarcinoma

Author

Elganainy, Dalia, primary, Costa, Andressa Dias, additional, Jordan, Alexander, additional, Kim, Suryun, additional, Väyrynen, Sara A., additional, Williams, Hannah L., additional, Yuan, Chen, additional, Rubinson, Douglas A., additional, Perez, Kimberly, additional, Singh, Harshabad, additional, Dunne, Richard F., additional, Clancy, Thomas E., additional, Linehan, David C., additional, Chang, Daniel T., additional, Hezel, Aram F., additional, Koong, Albert C., additional, Aguirre, Andrew, additional, Wolpin, Brian M., additional, and Nowak, Jonathan A., additional

Published
2024
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46. Abstract B016: Eosinophils alter metastatic spread in pancreatic cancer

Author

Hoffman, Megan T., primary, Lenehan, Patrick J., additional, Wang, Jen, additional, Ali, Lestat, additional, Uchida, Amiko, additional, Vayrynen, Sara, additional, Costa, Andressa Dias, additional, Dougan, Michael, additional, Heckler, Max, additional, Nowak, Jonathan, additional, Wolpin, Brian W., additional, and Dougan, Stephanie K., additional

Published
2024
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47. Protein biomarkers and alternatively methylated cell-free DNA detect early stage pancreatic cancer

Author

Ben-Ami, Roni, primary, Wang, Qiao-Li, additional, Zhang, Jinming, additional, Supplee, Julianna G, additional, Fahrmann, Johannes F, additional, Lehmann-Werman, Roni, additional, Brais, Lauren K, additional, Nowak, Jonathan, additional, Yuan, Chen, additional, Loftus, Maureen, additional, Babic, Ana, additional, Irajizad, Ehsan, additional, Davidi, Tal, additional, Zick, Aviad, additional, Hubert, Ayala, additional, Neiman, Daniel, additional, Piyanzin, Sheina, additional, Gal-Rosenberg, Ofer, additional, Horn, Amit, additional, Shemer, Ruth, additional, Glaser, Benjamin, additional, Boos, Natalia, additional, Jajoo, Kunal, additional, Lee, Linda, additional, Clancy, Thomas E, additional, Rubinson, Douglas A, additional, Ng, Kimmie, additional, Chabot, John A, additional, Kastrinos, Fay, additional, Kluger, Michael, additional, Aguirre, Andrew J, additional, Jänne, Pasi A, additional, Bardeesy, Nabeel, additional, Stanger, Ben, additional, O'Hara, Mark H, additional, Till, Jacob, additional, Maitra, Anirban, additional, Carpenter, Erica L, additional, Bullock, Andrea J, additional, Genkinger, Jeanine, additional, Hanash, Samir M, additional, Paweletz, Cloud P, additional, Dor, Yuval, additional, and Wolpin, Brian M, additional

Published
2023
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49. Supplementary Figure S3 from Oncogenic Drivers and Therapeutic Vulnerabilities in KRAS Wild-Type Pancreatic Cancer

Author

Singh, Harshabad, primary, Keller, Rachel B., primary, Kapner, Kevin S., primary, Dilly, Julien, primary, Raghavan, Srivatsan, primary, Yuan, Chen, primary, Cohen, Elizabeth F., primary, Tolstorukov, Michael, primary, Andrews, Elizabeth, primary, Brais, Lauren K., primary, da Silva, Annacarolina, primary, Perez, Kimberly, primary, Rubinson, Douglas A., primary, Surana, Rishi, primary, Giannakis, Marios, primary, Ng, Kimmie, primary, Clancy, Thomas E., primary, Yurgelun, Matthew B., primary, Schlechter, Benjamin L., primary, Clark, Jeffrey W., primary, Shapiro, Geoffrey I., primary, Rosenthal, Michael H., primary, Hornick, Jason L., primary, Nardi, Valentina, primary, Li, Yvonne Y., primary, Gupta, Hersh, primary, Cherniack, Andrew D., primary, Meyerson, Matthew, primary, Cleary, James M., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, and Aguirre, Andrew J., primary

Published
2023
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50. Supplementary Table S8 from Oncogenic Drivers and Therapeutic Vulnerabilities in KRAS Wild-Type Pancreatic Cancer

Author

Singh, Harshabad, primary, Keller, Rachel B., primary, Kapner, Kevin S., primary, Dilly, Julien, primary, Raghavan, Srivatsan, primary, Yuan, Chen, primary, Cohen, Elizabeth F., primary, Tolstorukov, Michael, primary, Andrews, Elizabeth, primary, Brais, Lauren K., primary, da Silva, Annacarolina, primary, Perez, Kimberly, primary, Rubinson, Douglas A., primary, Surana, Rishi, primary, Giannakis, Marios, primary, Ng, Kimmie, primary, Clancy, Thomas E., primary, Yurgelun, Matthew B., primary, Schlechter, Benjamin L., primary, Clark, Jeffrey W., primary, Shapiro, Geoffrey I., primary, Rosenthal, Michael H., primary, Hornick, Jason L., primary, Nardi, Valentina, primary, Li, Yvonne Y., primary, Gupta, Hersh, primary, Cherniack, Andrew D., primary, Meyerson, Matthew, primary, Cleary, James M., primary, Nowak, Jonathan A., primary, Wolpin, Brian M., primary, and Aguirre, Andrew J., primary

Published
2023
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