Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities by Vasaikar, Suhas, Huang, Chen, Wang, Xiaojing, Petyuk, Vladislav A., Savage, Sara R., Wen, Bo, Dou, Yongchao, Zhang, Yun, Shi, Zhiao, Arshad, Osama A., Gritsenko, Marina A., Zimmerman, Lisa J., McDermott, Jason E., Clauss, Therese R., Moore, Ronald J., Zhao, Rui, Monroe, Matthew E., Wang, Yi-Ting, Chambers, Matthew C., Slebos, Robbert J.C., Lau, Ken S., Mo, Qianxing, Ding, Li, Ellis, Matthew, Thiagarajan, Mathangi, Kinsinger, Christopher R., Rodriguez, Henry, Smith, Richard D., Rodland, Karin D., Liebler, Daniel C., Liu, Tao, Zhang, Bing, Pandey, Akhilesh, Paulovich, Amanda, Hoofnagle, Andrew, Mani, D.R., Chan, Daniel W., Ransohoff, David F., Fenyo, David, Tabb, David L., Levine, Douglas A., Boja, Emily S., Kuhn, Eric, White, Forest M., Whiteley, Gordon A., Zhu, Heng, Zhang, Hui, Shih, Ie-Ming, Bavarva, Jasmin, Whiteaker, Jeffrey, Ketchum, Karen A., Clauser, Karl R., Ruggles, Kelly, Elburn, Kimberly, Hannick, Linda, Watson, Mark, Oberti, Mauricio, Mesri, Mehdi, Sanders, Melinda E., Borucki, Melissa, Gillette, Michael A., Snyder, Michael, Edwards, Nathan J., Vatanian, Negin, Rudnick, Paul A., McGarvey, Peter B., Mertins, Philip, Townsend, R. Reid, Thangudu, Ratna R., Rivers, Robert C., Payne, Samuel H., Davies, Sherri R., Cai, Shuang, Stein, Stephen E., Carr, Steven A., Skates, Steven J., Madhavan, Subha, Hiltke, Tara, Chen, Xian, Zhao, Yingming, Wang, Yue, Zhang, Zhen

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The CPTAC Data Portal: A Resource for Cancer Proteomics Research by Edwards, Nathan J., Oberti, Mauricio, Thangudu, Ratna R., Cai, Shuang, McGarvey, Peter B., Jacob, Shine, Madhavan, Subha, Ketchum, Karen A.

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Curation of the Pancreatic Ductal Adenocarcinoma Subset of the Cancer Genome Atlas Is Essential for Accurate Conclusions about Survival-Related Molecular Mechanisms by Peran, Ivana, Madhavan, Subha, Byers, Stephen W, McCoy, Matthew D

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The REMBRANDT study, a large collection of genomic data from brain cancer patients by Gusev, Yuriy, Bhuvaneshwar, Krithika, Song, Lei, Zenklusen, Jean-Claude, Fine, Howard, Madhavan, Subha

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Distinct lymphocyte antigens 6 (Ly6) family members Ly6D, Ly6E, Ly6K and Ly6H drive tumorigenesis and clinical outcome by Luo, Linlin, McGarvey, Peter, Madhavan, Subha, Kumar, Rakesh, Gusev, Yuriy, Upadhyay, Geeta

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Rembrandt: helping personalized medicine become a reality through integrative translational research by Madhavan, Subha, Zenklusen, Jean-Claude, Kotliarov, Yuri, Sahni, Himanso, Fine, Howard A, Buetow, Kenneth

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viGEN: An Open Source Pipeline for the Detection and Quantification of Viral RNA in Human Tumors by Bhuvaneshwar, Krithika, Song, Lei, Madhavan, Subha, Gusev, Yuriy

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Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma by Hu, Yingwei, Pan, Jianbo, Shah, Punit, Ao, Minghui, Thomas, Stefani N., Liu, Yang, Chen, Lijun, Schnaubelt, Michael, Clark, David J., Rodriguez, Henry, Boja, Emily S., Hiltke, Tara, Kinsinger, Christopher R., Rodland, Karin D., Li, Qing Kay, Qian, Jiang, Zhang, Zhen, Chan, Daniel W., Zhang, Hui, Pandey, Akhilesh, Paulovich, Amanda, Hoofnagle, Andrew, Zhang, Bing, Mani, D.R., Liebler, Daniel C., Ransohoff, David F., Fenyo, David, Tabb, David L., Levine, Douglas A., Kuhn, Eric, White, Forest M., Whiteley, Gordon A., Zhu, Heng, Shih, Ie-Ming, Bavarva, Jasmin, McDermott, Jason E., Whiteaker, Jeffrey, Ketchum, Karen A., Clauser, Karl R., Ruggles, Kelly, Elburn, Kimberly, Ding, Li, Hannick, Linda, Zimmerman, Lisa J., Watson, Mark, Thiagarajan, Mathangi, Ellis, Matthew J.C., Oberti, Mauricio, Mesri, Mehdi, Sanders, Melinda E., Borucki, Melissa, Gillette, Michael A., Snyder, Michael, Edwards, Nathan J., Vatanian, Negin, Rudnick, Paul A., McGarvey, Peter B., Mertins, Philip, Townsend, R. Reid, Thangudu, Ratna R., Smith, Richard D., Rivers, Robert C., Slebos, Robert J.C., Payne, Samuel H., Davies, Sherri R., Cai, Shuang, Stein, Stephen E., Carr, Steven A., Skates, Steven J., Madhavan, Subha, Liu, Tao, Chen, Xian, Zhao, Yingming, Wang, Yue, Shi, Zhiao

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Integrative genomic analysis of the lung tissue microenvironment in SARS-CoV-2 and NL63 patients by Bhuvaneshwar, Krithika, Madhavan, Subha, Gusev, Yuriy

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Safety and efficacy of immune checkpoint inhibitors (ICIs) in cancer patients with HIV, hepatitis B, or hepatitis C viral infection by Shah, Neil J., Al-Shbool, Ghassan, Blackburn, Matthew, Cook, Michael, Belouali, Anas, Liu, Stephen V., Madhavan, Subha, He, Aiwu Ruth, Atkins, Michael B., Gibney, Geoffrey T., Kim, Chul

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SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants by McCoy, Matthew D, Shivakumar, Vikram, Nimmagadda, Sridhar, Jafri, Mohsin Saleet, Madhavan, Subha

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Genome sequencing analysis of blood cells identifies germline haplotypes strongly associated with drug resistance in osteosarcoma patients by Bhuvaneshwar, Krithika, Harris, Michael, Gusev, Yuriy, Madhavan, Subha, Iyer, Ramaswamy, Vilboux, Thierry, Deeken, John, Yang, Elizabeth, Shankar, Sadhna

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Allele-specific DNA methylation is increased in cancers and its dense mapping in normal plus neoplastic cells increases the yield of disease-associated regulatory SNPs by Do, Catherine, Dumont, Emmanuel L P, Salas, Martha, Castano, Angelica, Mujahed, Huthayfa, Maldonado, Leonel, Singh, Arunjot, DaSilva-Arnold, Sonia C, Bhagat, Govind, Lehman, Soren, Christiano, Angela M, Madhavan, Subha, Nagy, Peter L, Green, Peter H R, Feinman, Rena, Trimble, Cornelia, Illsley, Nicholas P, Marder, Karen, Honig, Lawrence, Monk, Catherine, Goy, Andre, Chow, Kar, Goldlust, Samuel, Kaptain, George, Siegel, David, Tycko, Benjamin

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G-DOC Plus - an integrative bioinformatics platform for precision medicine by Bhuvaneshwar, Krithika, Belouali, Anas, Singh, Varun, Johnson, Robert M, Song, Lei, Alaoui, Adil, Harris, Michael A, Clarke, Robert, Weiner, Louis M, Gusev, Yuriy, Madhavan, Subha

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miR-21 Expression Determines the Early Vaccine Immunity Induced by LdCen -/- Immunization by Gannavaram, Sreenivas, Bhattacharya, Parna, Siddiqui, Abid, Ismail, Nevien, Madhavan, Subha, Nakhasi, Hira L

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Acquired Resistance to a MET Antibody In Vivo Can Be Overcome by the MET Antibody Mixture Sym015 by Pollmann, Sofie Ellebaek, Calvert, Valerie S, Rao, Shruti, Boca, Simina M, Madhavan, Subha, Horak, Ivan D, Kjaer, Andreas, Petricoin, Emanuel F, Kragh, Michael, Poulsen, Thomas Tuxen

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Recurrence of early stage colon cancer predicted by expression pattern of circulating microRNAs by Shivapurkar, Narayan, Weiner, Louis M, Marshall, John L, Madhavan, Subha, Deslattes Mays, Anne, Juhl, Hartmut, Wellstein, Anton

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Enhancing the REMBRANDT MRI collection with expert segmentation labels and quantitative radiomic features by Sayah, Anousheh, Bencheqroun, Camelia, Bhuvaneshwar, Krithika, Belouali, Anas, Bakas, Spyridon, Sako, Chiharu, Davatzikos, Christos, Alaoui, Adil, Madhavan, Subha, Gusev, Yuriy

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eGARD: Extracting associations between genomic anomalies and drug responses from text by Mahmood, A S M Ashique, Rao, Shruti, McGarvey, Peter, Wu, Cathy, Madhavan, Subha, Vijay-Shanker, K

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Exploring approaches for predictive cancer patient digital twins: Opportunities for collaboration and innovation by Stahlberg, Eric A, Abdel-Rahman, Mohamed, Aguilar, Boris, Asadpoure, Alireza, Beckman, Robert A, Borkon, Lynn L, Bryan, Jeffrey N, Cebulla, Colleen M, Chang, Young Hwan, Chatterjee, Ansu, Deng, Jun, Dolatshahi, Sepideh, Gevaert, Olivier, Greenspan, Emily J, Hao, Wenrui, Hernandez-Boussard, Tina, Jackson, Pamela R, Kuijjer, Marieke, Lee, Adrian, Macklin, Paul, Madhavan, Subha, McCoy, Matthew D, Mohammad Mirzaei, Navid, Razzaghi, Talayeh, Rocha, Heber L, Shahriyari, Leili, Shmulevich, Ilya, Stover, Daniel G, Sun, Yi, Syeda-Mahmood, Tanveer, Wang, Jinhua, Wang, Qi, Zervantonakis, Ioannis

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