Single-cell RNA sequencing reveals the effects of chemotherapy on human pancreatic adenocarcinoma and its tumor microenvironment by Werba, Gregor, Weissinger, Daniel, Kawaler, Emily A., Zhao, Ende, Kalfakakou, Despoina, Dhara, Surajit, Wang, Lidong, Lim, Heather B., Oh, Grace, Jing, Xiaohong, Beri, Nina, Khanna, Lauren, Gonda, Tamas, Oberstein, Paul, Hajdu, Cristina, Loomis, Cynthia, Heguy, Adriana, Sherman, Mara H., Lund, Amanda W., Welling, Theodore H., Dolgalev, Igor, Tsirigos, Aristotelis, Simeone, Diane M.

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Author Correction: Single-cell RNA sequencing reveals the effects of chemotherapy on human pancreatic adenocarcinoma and its tumor microenvironment by Werba, Gregor, Weissinger, Daniel, Kawaler, Emily A., Zhao, Ende, Kalfakakou, Despoina, Dhara, Surajit, Wang, Lidong, Lim, Heather B., Oh, Grace, Jing, Xiaohong, Beri, Nina, Khanna, Lauren, Gonda, Tamas, Oberstein, Paul, Hajdu, Cristina, Loomis, Cynthia, Heguy, Adriana, Sherman, Mara H., Lund, Amanda W., Welling, Theodore H., Dolgalev, Igor, Tsirigos, Aristotelis, Simeone, Diane M.

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Impact of comprehensive family history and genetic analysis in the multidisciplinary pancreatic tumor clinic setting by Everett, Jessica N., Dettwyler, Shenin A., Jing, Xiaohong, Stender, Cody, Schmitter, Madeleine, Baptiste, Ariele, Chun, Jennifer, Kawaler, Emily A., Khanna, Lauren G., Gross, Seth A., Gonda, Tamas A., Beri, Nina, Oberstein, Paul E., Simeone, Diane M.

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BlackSheep: A Bioconductor and Bioconda Package for Differential Extreme Value Analysis by Blumenberg, Lili, Kawaler, Emily A., Cornwell, MacIntosh, Smith, Shaleigh, Ruggles, Kelly V., Fenyö, David

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The role of CTNNB1 mutations and matrix metalloproteinases (MMPs) in anti-angiogenesis treatment of endometrial carcinoma by Berger, Amnon A., Kawaler, Emily A., Dao, Fanny, Misirlioglu, Selim, Fernandez, Ernesto Arostegui, Olvera, Narciso, Van Oudenhove, Elke, DeLair, Deborah, Levine, Douglas A.

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Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer by Reva, Boris, Chowdhury, Shrabanti, Ji, Jiayi, Whiteaker, Jeffrey R., Colaprico, Antonio, Raman, Pichai, Guo, Yiran, Brown, Miguel A., Ivey, Richard G., Szpyt, John, Guha Thakurta, Sanjukta, Lopez, Gonzalo, Kalayci, Selim, Gümüş, Zeynep H., Yoo, Seungyeul, da Veiga Leprevost, Felipe, Katsnelson, Lizabeth, Wang, Ying, Kennedy, Jacob J., Voytovich, Uliana J., Zhao, Lei, Baubet, Valerie, Tauhid, Lamiya, Lilly, Jena V., Mason, Jennifer L., Farrow, Bailey, Young, Nathan, Leary, Sarah, Moon, Jamie, Petyuk, Vladislav A., Nazarian, Javad, Palmer, James N., Lober, Robert M., Rivero-Hinojosa, Samuel, Wang, Joshua M., Broberg, Matilda, Chu, Rosalie K., Moore, Ronald J., Monroe, Matthew E., Zhao, Rui, Zhu, Jun, Mesri, Mehdi, Boja, Emily, Hiltke, Tara, Rodriguez, Henry, Zhang, Bing, Mani, D.R., Iavarone, Antonio, Schürer, Stephan, Chen, Xi S., Heath, Allison P., Rokita, Jo Lynne, Nesvizhskii, Alexey I., Fenyö, David, Rodland, Karin D., Liu, Tao, Paulovich, Amanda G., Resnick, Adam C., Storm, Phillip B., Rood, Brian R., Wang, Pei, Morgan, Allison M., Waanders, Angela J., Buccoliero, Anna Maria, Leonard, Carina A., Kline, Cassie N., Li, Chunde, Kram, David E., Hanson, Derek, Appert, Elizabeth, Kawaler, Emily A., Raabe, Eric H., Jackson, Eric M., Greenfield, Jeffrey P., Pollack, Ian F., Cain, Jason E., Foster, Jessica B., Palma, July E., Ketchum, Karen A., Blumenberg, Lili, Cornwell, Macintosh, Sarmady, Mahdi, Domagalski, Marcin J., Cieślik, Marcin P., Li, Marilyn M., Wyczalkowski, Matthew A., Connors, Meghan, Gupta, Nalin, Edwards, Nathan J., Vaske, Olena M., Becher, Oren, Firestein, Ron, Mueller, Sabine, Winebrake, Samuel G., Dhanasekaran, Saravana Mohan, Cai, Shuang, Patton, Tatiana, Lorentzen, Travis D., Liu, Wenke, Bocik, William E.

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Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma by Satpathy, Shankha, Cao, Song, Dhanasekaran, Saravana M., Vasaikar, Suhas V., Petralia, Francesca, Liang, Wen-Wei, Krek, Azra, Hong, Runyu, Blumenberg, Lili, Wendl, Michael C., Wen, Bo, Tang, Lauren C., MacMullan, Melanie A., Kane, M. Harry, Newton, Chelsea J., Cornwell, MacIntosh, Yoo, Seungyeul, Mannan, Rahul, Vats, Pankaj, Kumar-Sinha, Chandan, Colaprico, Antonio, Geffen, Yifat, Wiznerowicz, Maciej, Gümüş, Zeynep H., Veluswamy, Rajwanth R., Hostetter, Galen, Mesri, Mehdi, Boja, Emily S., Omenn, Gilbert S., Thiagarajan, Mathangi, Getz, Gad, Cieslik, Marcin P., Govindan, Ramaswamy, Wang, Pei, Nesvizhskii, Alexey I., Ding, Li, Mani, D.R., Francis, Alicia, Charamut, Alyssa, Paulovich, Amanda G., Karnuta, Andrii, Hindenach, Barbara, Druker, Brian J., Birger, Chet, Jones, Corbin D., Rohrer, Daniel C., Zhou, Daniel Cui, Chan, Daniel W., Chesla, David, Clark, David J., Tan, Donghui, Duffy, Elizabeth, Bergstrom, Erik J., Wilson, George D., Chen, Hai-Quan, Sun, Hua, Whiteaker, Jeffrey R., Rodland, Karin D., Hoadley, Katherine A., Elburn, Kim, Hannick, Linda, Qi, Liqun, Sokoll, Lori J., Wojtyś, Małgorzata, Domagalski, Marcin J., Beasley, Mary B., Monroe, Matthew E., Ellis, Matthew J., Dyer, Maureen, Burke, Meghan C., Borucki, Melissa, Schnaubelt, Michael, Chaikin, Michelle, Selvan, Myvizhi Esai, McGarvey, Peter B., Thangudu, Ratna R., Smith, Richard D., Welsh, Robert J., Zelt, Robert, Mehra, Rohit, Matteotti, Ronald, Mareedu, Sailaja, Payne, Samuel H., Cottingham, Sandra, Chugh, Seema, Smith, Shaleigh, Tsang, Shirley, Cai, Shuang, Boca, Simina M., Stein, Stephen E., Krubit, Tanya, Skelly, Tara, Bauer, Thomas, Velvulou, Uma, Petyuk, Vladislav A., Bocik, William E., Maggio, William W., Chen, Xi, Wu, Yige, Shi, Zhiao

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Proteogenomic Characterization of Endometrial Carcinoma by Kawaler, Emily A., Cui Zhou, Daniel, Huang, Chen, Blumenberg, Lili, Karpova, Alla, Petyuk, Vladislav A., Wen, Bo, Li, Zhi, Cao, Song, Moon, Jamie, Shi, Zhiao, Cornwell, MacIntosh, Wyczalkowski, Matthew A., Chu, Rosalie K., Gao, Qingsong, Moore, Ronald J., Li, Kai, Zhao, Rui, Clauser, Karl, Maruvka, Yosef, Pico, Alexander R., Beecroft, Sean J.I., Adams, David W., Liao, Yuxing, Rykunov, Dmitry, Czekański, Andrzej, Jędryka, Marcin, Kinsinger, Christopher R., Mesri, Mehdi, Ellis, Matthew J., Thiagarajan, Mathangi, Noble, Michael, Wang, Pei, Anderson, Matthew L., Levine, Douglas A., Rodland, Karin D., Liu, Tao, Birger, Chet, Birrer, Michael J., Bocik, William E., Borate, Uma, Cai, Shuang, Carter, Sonya, Castro, Patricia, Chaikin, Michelle, Chen, Jin, Chesla, David, Chheda, Milan G., Culpepper, Houston, Demir, Emek, Dhir, Rajiv, Domagalski, Marcin J., Edwards, Robert, Elburn, Kim, Field, Jayson B., Gabriel, Stacey, Godwin, Andrew K., Grady, Pamela, Hariharan, Pushpa, Hoadley, Katherine A., Hostetter, Galen, Hu, Yingwei, Jaehnig, Eric, Jewell, Scott D., Ji, Jiayi, Jones, Corbin D., Karabon, Renee, Ketchum, Karen A., Krubit, Tanya, Leprevost, Felipe D., Lewis, Michael, Ma, Weiping, Madan, Rashna, Markey, Sanford P., McDermott, Jason, McGarvey, Peter B., Modugno, Francesmary, Montgomery, Rebecca, Piehowski, Paul, Polonskaya, Larisa, Qi, Liqun, Schadt, Eric E., Shi, Yan, Skelly, Tara, Stein, Stephen E., Tan, Donghui, Teo, Guo Ci, Thangudu, Ratna R., Valley, Dana R., Vernon, Michael, Wang, Ying, Webster, Alex, Westbrook, Thomas, Wheeler, David, Wilson, George D., Zelt, Robert, Zhang, Hui, Zhang, Yuping, Zhang, Zhen, Zhao, Grace

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Abstract 6580: Proteogenomic characterization of endometrial carcinoma by Kawaler, Emily A., Dou, Yongchao, Zhou, Daniel Cui, Gritsenko, Marina A., Rodland, Karin D., Ding, Li, Zhang, Bing, Liu, Tao, Fenyö, David

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Abstract B065: Polymerase theta inhibition activates the cGAS-STING signaling pathway and elicits an immune response in homologous recombination-deficient pancreatic adenocarcinoma by Oh, Grace, Wang, Annie, Wang, Lidong, Li, Jiufeng, Werba, Gregor, Weissinger, Daniel, Zhao, Ende, Dhara, Surajit, Hernandez, Rosmel, Ackermann, Amanda, Kalfakakou, Despoina, Kawaler, Emily A., Golan, Talia, Welling, Theodore H., Sfeir, Agnel, Simeone, Diane M.

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Abstract PR005: Primary results of PanCAN-SR1, a phase 1b study evaluating Gemcitabine, nab-Paclitaxel, Canakinumab, and Spartalizumab to target IL-1β and PD-1 in metastatic pancre... by Oberstein, Paul E., Rahma, Osama, Beri, Nina, Stoll-D'Astice, Amy, Kawaler, Emily A., Dolgalev, Igor, Werba, Gregor, Cardo-Ruffino, Victoire, Böllenrücher, Naïma, Costa, Andressa Dias, Nazeer, Saloney, Squires, Matthew, Nowak, Jonathan, Bar-Sagi, Dafna, Wolpin, Brian, Simeone, Diane M, Dougan, Stephanie K

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Abstract PR010: Single-cell sequencing elucidates the effects of chemotherapy on cancer cell heterogeneity and the tumor microenvironment of human pancreatic adenocarcinoma by Weissinger, Daniel, Kawaler, Emily A., Werba, Gregor, Zhao, Ende, Kalfakakou, Despoina, Dhara, Surajit, Oh, Grace, Jing, Xiaohong, Beri, Nina, Khanna, Lauren, Gonda, Tamas, Oberstein, Paul E., Hajdu, Cristina, Loomis, Cynthia, Heguy, Adriana, Sherman, Mara H., Lund, Amanda W., Welling, Theodore H., Dolgalev, Igor, Tsirigos, Aristotelis, Simeone, Diane M.

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Proteogenomics connects somatic mutations to signalling in breast cancer by Mertins, Philipp, Mani, D. R., Ruggles, Kelly V., Gillette, Michael A., Clauser, Karl R., Wang, Pei, Wang, Xianlong, Qiao, Jana W., Cao, Song, Petralia, Francesca, Kawaler, Emily, Mundt, Filip, Krug, Karsten, Tu, Zhidong, Lei, Jonathan T., Gatza, Michael L., Wilkerson, Matthew, Perou, Charles M., Yellapantula, Venkata, Huang, Kuan-lin, Lin, Chenwei, McLellan, Michael D., Yan, Ping, Davies, Sherri R., Townsend, R. Reid, Skates, Steven J., Wang, Jing, Zhang, Bing, Kinsinger, Christopher R., Mesri, Mehdi, Rodriguez, Henry, Ding, Li, Paulovich, Amanda G., Fenyö, David, Ellis, Matthew J., Carr, Steven A.

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POLQ inhibition elicits an immune response in homologous recombination-deficient pancreatic adenocarcinoma via cGAS/STING signaling by Oh, Grace, Wang, Annie, Wang, Lidong, Li, Jiufeng, Werba, Gregor, Weissinger, Daniel, Zhao, Ende, Dhara, Surajit, Hernandez, Rosmel E, Ackermann, Amanda, Porcella, Sarina, Kalfakakou, Despoina, Dolgalev, Igor, Kawaler, Emily, Golan, Talia, Welling, Theodore H, Sfeir, Agnel, Simeone, Diane M

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Mass Spectrometry-Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers by Mundt, Filip, Rajput, Sandeep, Li, Shunqiang, Ruggles, Kelly V, Mooradian, Arshag D, Mertins, Philipp, Gillette, Michael A, Krug, Karsten, Guo, Zhanfang, Hoog, Jeremy, Erdmann-Gilmore, Petra, Primeau, Tina, Huang, Shixia, Edwards, Dean P, Wang, Xiaowei, Wang, Xuya, Kawaler, Emily, Mani, D R, Clauser, Karl R, Gao, Feng, Luo, Jingqin, Davies, Sherri R, Johnson, Gary L, Huang, Kuan-Lin, Yoon, Christopher J, Ding, Li, Fenyö, David, Ellis, Matthew J, Townsend, R Reid, Held, Jason M, Carr, Steven A, Ma, Cynthia X

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Abstract 184: The role of matrix metalloproteinases (MMPs) and CTNNB1 mutations in endometrial carcinoma by Berger, Amnon A., Levine, Douglas A., Kawaler, Emily

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ProteomeGenerator: A Framework for Comprehensive Proteomics Based on de Novo Transcriptome Assembly and High-Accuracy Peptide Mass Spectral Matching by Cifani, Paolo, Dhabaria, Avantika, Chen, Zining, Yoshimi, Akihide, Kawaler, Emily, Abdel-Wahab, Omar, Poirier, John T, Kentsis, Alex

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Quantitative Mass Spectrometry to Interrogate Proteomic Heterogeneity in Metastatic Lung Adenocarcinoma and Validate a Novel Somatic Mutation CDK12-G879V[S] by Zhang, Xu, Nguyen, Khoa Dang, Rudnick, Paul A., Roper, Nitin, Kawaler, Emily, Maity, Tapan K., Awasthi, Shivangi, Gao, Shaojian, Biswas, Romi, Venugopalan, Abhilash, Cultraro, Constance M., Fenyö, David, Guha, Udayan

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Abstract 4528: Quantitative mass spectrometry to interrogate proteomic heterogeneity in metastatic lung adenocarcinoma and validate a novel somatic mutation CDK12-G879V by Xhang, Xu, Nguyen, Khoa Dang P., Rudnick, Paul, Roper, Nitin, Kawaler, Emily, Maity, Tapan K., Awasthi, Shivangi, Gao, Shaojian, Biswas, Romi, Venugopalan, Abhilash, Cultraro, Constance, Fenyo, David, Guha, Udayan

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Correction: Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts by Huang, Kuan-lin, Li, Shunqiang, Mertins, Philipp, Cao, Song, Gunawardena, Harsha P., Ruggles, Kelly V., Mani, D. R., Clauser, Karl R., Tanioka, Maki, Usary, Jerry, Kavuri, Shyam M., Xie, Ling, Yoon, Christopher, Qiao, Jana W., Wrobel, John, Wyczalkowski, Matthew A., Erdmann-Gilmore, Petra, Snider, Jacqueline E., Hoog, Jeremy, Singh, Purba, Niu, Beifang, Guo, Zhanfang, Sun, Sam Qiancheng, Sanati, Souzan, Kawaler, Emily, Wang, Xuya, Scott, Adam, Ye, Kai, McLellan, Michael D., Wendl, Michael C., Malovannaya, Anna, Held, Jason M., Gillette, Michael A., Fenyö, David, Kinsinger, Christopher R., Mesri, Mehdi, Rodriguez, Henry, Davies, Sherri R., Perou, Charles M., Ma, Cynthia, Townsend, R. Reid, Chen, Xian, Carr, Steven A., Ellis, Matthew J., Ding, Li

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