The CPTAC Data Portal: A Resource for Cancer Proteomics Research von 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 von 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 von Gusev, Yuriy, Bhuvaneshwar, Krithika, Song, Lei, Zenklusen, Jean-Claude, Fine, Howard, Madhavan, Subha

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A harmonized meta-knowledgebase of clinical interpretations of somatic genomic variants in cancer von Wagner, Alex H., Walsh, Brian, Mayfield, Georgia, Tamborero, David, Sonkin, Dmitriy, Krysiak, Kilannin, Deu-Pons, Jordi, Duren, Ryan P., Gao, Jianjiong, McMurry, Julie, Patterson, Sara, del Vecchio Fitz, Catherine, Pitel, Beth A., Sezerman, Ozman U., Ellrott, Kyle, Warner, Jeremy L., Rieke, Damian T., Aittokallio, Tero, Cerami, Ethan, Ritter, Deborah I., Schriml, Lynn M., Freimuth, Robert R., Haendel, Melissa, Raca, Gordana, Madhavan, Subha, Baudis, Michael, Beckmann, Jacques S., Dienstmann, Rodrigo, Chakravarty, Debyani, Li, Xuan Shirley, Mockus, Susan, Elemento, Olivier, Schultz, Nikolaus, Lopez-Bigas, Nuria, Lawler, Mark, Goecks, Jeremy, Griffith, Malachi, Griffith, Obi L., Margolin, Adam A.

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Distinct lymphocyte antigens 6 (Ly6) family members Ly6D, Ly6E, Ly6K and Ly6H drive tumorigenesis and clinical outcome von 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 von Madhavan, Subha, Zenklusen, Jean-Claude, Kotliarov, Yuri, Sahni, Himanso, Fine, Howard A, Buetow, Kenneth

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Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma von 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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viGEN: An Open Source Pipeline for the Detection and Quantification of Viral RNA in Human Tumors von Bhuvaneshwar, Krithika, Song, Lei, Madhavan, Subha, Gusev, Yuriy

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Integrative genomic analysis of the lung tissue microenvironment in SARS-CoV-2 and NL63 patients von 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 von 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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Integrating Model‐Informed Drug Development With AI: A Synergistic Approach to Accelerating Pharmaceutical Innovation von Raman, Karthik, Kumar, Rukmini, Musante, Cynthia J., Madhavan, Subha

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SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants von 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 von Bhuvaneshwar, Krithika, Harris, Michael, Gusev, Yuriy, Madhavan, Subha, Iyer, Ramaswamy, Vilboux, Thierry, Deeken, John, Yang, Elizabeth, Shankar, Sadhna

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Biomarker_nlp: A Python Package for Mining Biomarker Information for Targeted Cancer Therapies von Lin, Junxia, He, Yuezheng, Madhavan, Subha, Kim, Chul, Boca, Simina M

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G-DOC Plus - an integrative bioinformatics platform for precision medicine von 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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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 von 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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miR-21 Expression Determines the Early Vaccine Immunity Induced by LdCen -/- Immunization von 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 von 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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Exploring approaches for predictive cancer patient digital twins: Opportunities for collaboration and innovation von 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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Recurrence of early stage colon cancer predicted by expression pattern of circulating microRNAs von Shivapurkar, Narayan, Weiner, Louis M, Marshall, John L, Madhavan, Subha, Deslattes Mays, Anne, Juhl, Hartmut, Wellstein, Anton

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