Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma

Gillette, Michael A., Satpathy, Shankha, Cao, Song, Dhanasekaran, Saravana M., Vasaikar, Suhas V., Krug, Karsten, Petralia, Francesca, Li, Yize, Liang, Wen-Wei, Reva, Boris, Krek, Azra, Ji, Jiayi, Song, Xiaoyu, Liu, Wenke, Hong, Runyu, Yao, Lijun, Blumenberg, Lili, Savage, Sara R., Wendl, Michael C., Wen, Bo, Li, Kai, Tang, Lauren C., MacMullan, Melanie A., Avanessian, Shayan C., Kane, M. Harry, Newton, Chelsea J., Cornwell, MacIntosh, Kothadia, Ramani B., Ma, Weiping, Yoo, Seungyeul, Mannan, Rahul, Vats, Pankaj, Kumar-Sinha, Chandan, Kawaler, Emily A., Omelchenko, Tatiana, Colaprico, Antonio, Geffen, Yifat, Maruvka, Yosef E., da Veiga Leprevost, Felipe, Wiznerowicz, Maciej, Gümüş, Zeynep H., Veluswamy, Rajwanth R., Hostetter, Galen, Heiman, David I., Wyczalkowski, Matthew A., Hiltke, Tara, Mesri, Mehdi, Kinsinger, Christopher R., Boja, Emily S., Omenn, Gilbert S., Chinnaiyan, Arul M., Rodriguez, Henry, Li, Qing Kay, Jewell, Scott D., Thiagarajan, Mathangi, Getz, Gad, Zhang, Bing, Fenyö, David, Ruggles, Kelly V., Cieslik, Marcin P., Robles, Ana I., Clauser, Karl R., Govindan, Ramaswamy, Wang, Pei, Nesvizhskii, Alexey I., Ding, Li, Mani, D.R., Carr, Steven A., Webster, Alex, Francis, Alicia, Charamut, Alyssa, Paulovich, Amanda G., Perou, Amy M., Godwin, Andrew K., Karnuta, Andrii, Marrero-Oliveras, Annette, Hindenach, Barbara, Pruetz, Barbara, Kubisa, Bartosz, Druker, Brian J., Birger, Chet, Jones, Corbin D., Valley, Dana R., Rohrer, Daniel C., Zhou, Daniel Cui, Chan, Daniel W., Chesla, David, Clark, David J., Rykunov, Dmitry, Tan, Donghui, Ponomareva, Elena V., Duffy, Elizabeth, Burks, Eric J., Schadt, Eric E., Bergstrom, Erik J., Fedorov, Eugene S., Malc, Ewa, Wilson, George D., Chen, Hai-Quan, Krzystek, Halina M., Liu, Hongwei, Culpepper, Houston, Sun, Hua, Zhang, Hui, Day, Jacob, Suh, James, Whiteaker, Jeffrey R., Eschbacher, Jennifer, McGee, John, Ketchum, Karen A., Rodland, Karin D., Robinson, Karna, Hoadley, Katherine A., Suzuki, Kei, Um, Ki Sung, Elburn, Kim, Wang, Liang-Bo, Chen, Lijun, Hannick, Linda, Qi, Liqun, Sokoll, Lori J., Wojtyś, Małgorzata, Domagalski, Marcin J., Gritsenko, Marina A., Beasley, Mary B., Monroe, Matthew E., Ellis, Matthew J., Dyer, Maureen, Burke, Meghan C., Borucki, Melissa, Sun, Meng-Hong, Roehrl, Michael H., Birrer, Michael J., Noble, Michael, Schnaubelt, Michael, Vernon, Michael, Chaikin, Michelle, Krotevich, Mikhail, Khan, Munziba, Selvan, Myvizhi Esai, Roche, Nancy, Edwards, Nathan J., Vatanian, Negin, Potapova, Olga, Grady, Pamela, McGarvey, Peter B., Mieczkowski, Piotr, Hariharan, Pushpa, Madan, Rashna, Thangudu, Ratna R., Smith, Richard D., Welsh, Robert J., Zelt, Robert, Mehra, Rohit, Matteotti, Ronald, Mareedu, Sailaja, Payne, Samuel H., Cottingham, Sandra, Markey, Sanford P., Chugh, Seema, Smith, Shaleigh, Tsang, Shirley, Cai, Shuang, Boca, Simina M., Carter, Sonya, Gabriel, Stacey, De Young, Stephanie, Stein, Stephen E., Shankar, Sunita, Krubit, Tanya, Liu, Tao, Skelly, Tara, Bauer, Thomas, Velvulou, Uma, Ozbek, Umut, Petyuk, Vladislav A., Sovenko, Volodymyr, Bocik, William E., Maggio, William W., Chen, Xi, Shi, Yan, Wu, Yige, Hu, Yingwei, Liao, Yuxing, Zhang, Zhen, Shi, Zhiao·2020·Cell

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  23. Additional file 12 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, lele zhang et al. · 2022 · Figshare
  24. Additional file 7 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, lele zhang et al. · 2022 · Figshare
  25. Additional file 4 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Fa Yang, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  26. Additional file 4 of PARP4 interacts with hnRNPM to regulate splicing during lung cancer progression
    Yi Fei Lee, Cheryl Zi Jin Phua, Yuan, Ju, Zhang, Bin, Lee, May Yin, Srinivasaraghavan Kannan, Yui Hei Jasper Chiu, Casslynn W.Q. Koh, Choon Kong Yap, Edwin Kok Hao Lim et al. · 2024 · Figshare
  27. Additional file 2 of Energy stress-induced circZFR enhances oxidative phosphorylation in lung adenocarcinoma via regulating alternative splicing
    Ma, Zhifei, Chen, Hao, Xia, Zhijun, You, Jing, Han, Chencheng, Siwei Wang, Xia, Wenjia, Bai, Yongkang, Tongyan Liu, Xu, Lin et al. · 2024 · Figshare
  28. Additional file 11 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, Zhang, Lele et al. · 2022 · Figshare
  29. Additional file 1 of Energy stress-induced circZFR enhances oxidative phosphorylation in lung adenocarcinoma via regulating alternative splicing
    Ma, Zhifei, Chen, Hao, Xia, Zhijun, You, Jing, Han, Chencheng, Wang, Siwei, Xia, Wenjia, Bai, Yongkang, Tongyan Liu, Lin Xu et al. · 2024 · Figshare
  30. Additional file 12 of A systematic dissection of the epigenomic heterogeneity of lung adenocarcinoma reveals two different subclasses with distinct prognosis and core regulatory networks
    Chongze Yuan, Chen, Haojie, Shiqi Tu, Huang, Hsin-Yi, Pan, Yunjian, Xiuqi Gui, Muyu Kuang, Shen, Xuxia, Zheng, Qiang, Zhang, Yang et al. · 2021 · Figshare
  31. Additional file 2 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Fa Yang, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  32. Additional file 9 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, Zhang, Lele et al. · 2022 · Figshare
  33. Additional file 1 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Yang, Fa, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  34. Additional file 3 of TMPRSS2 is a tumor suppressor and its downregulation promotes antitumor immunity and immunotherapy response in lung adenocarcinoma
    Zhixian Liu, Lu, Qiqi, Zhang, Zhilan, Qiushi Feng, Xiaosheng Wang · 2024 · Figshare
  35. Additional file 3 of PARP4 interacts with hnRNPM to regulate splicing during lung cancer progression
    Yi Fei Lee, Cheryl Zi Jin Phua, Yuan, Ju, Zhang, Bin, Lee, May Yin, Srinivasaraghavan Kannan, Yui Hei Jasper Chiu, Casslynn W.Q. Koh, Choon Kong Yap, Edwin Kok Hao Lim et al. · 2024 · Figshare
  36. Additional file 6 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Yang, Fa, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Jia, Chenghui et al. · 2024 · Figshare
  37. Additional file 2 of PARP4 interacts with hnRNPM to regulate splicing during lung cancer progression
    Yi Fei Lee, Cheryl Zi Jin Phua, Yuan, Ju, Zhang, Bin, Lee, May Yin, Srinivasaraghavan Kannan, Yui Hei Jasper Chiu, Casslynn W.Q. Koh, Choon Kong Yap, Edwin Kok Hao Lim et al. · 2024 · Figshare
  38. Additional file 8 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, lele zhang et al. · 2022 · Figshare
  39. Additional file 10 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, lele zhang et al. · 2022 · Figshare
  40. Additional file 13 of Comparative profiling of single-cell transcriptome reveals heterogeneity of tumor microenvironment between solid and acinar lung adenocarcinoma
    Dianke Li, Yu, Huansha, Junjie Hu, Li, Shaoling, Yilv Yan, Shuangyi Li, Liangdong Sun, Jiang, Gening, Hou, Likun, lele zhang et al. · 2022 · Figshare
  41. Additional file 5 of Associations between immune cell phenotypes and lung cancer subtypes: insights from mendelian randomization analysis
    Zheng, Jin-Min, Lou, Chen-Xi, Huang, Yu-Liang, Song, Wen-Tao, Luo, Yi-Chen, Guanyong Mo, Tan, Lin-Yuan, Chen, Shang-Wei, Baijun Li · 2024 · Figshare
  42. Additional file 4 of TMPRSS2 is a tumor suppressor and its downregulation promotes antitumor immunity and immunotherapy response in lung adenocarcinoma
    Zhixian Liu, Lu, Qiqi, Zhang, Zhilan, Qiushi Feng, Xiaosheng Wang · 2024 · Figshare
  43. Additional file 7 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Yang, Fa, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  44. Additional file 5 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Yang, Fa, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  45. Additional file 1 of Altered expression of ACOX2 in non-small cell lung cancer
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  46. Additional file 1 of Integrated models of blood protein and metabolite enhance the diagnostic accuracy for Non-Small Cell Lung Cancer
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  47. Additional file 3 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Donghui Han, Lu, Yuan, Yang, Fa, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  48. Additional file 3 of Associations between immune cell phenotypes and lung cancer subtypes: insights from mendelian randomization analysis
    Zheng, Jin-Min, Lou, Chen-Xi, Huang, Yu-Liang, Song, Wen-Tao, Luo, Yi-Chen, Guanyong Mo, Tan, Lin-Yuan, Chen, Shang-Wei, Baijun Li · 2024 · Figshare
  49. Additional file 1 of PARP4 interacts with hnRNPM to regulate splicing during lung cancer progression
    Yi Fei Lee, Cheryl Zi Jin Phua, Yuan, Ju, Zhang, Bin, Lee, May Yin, Srinivasaraghavan Kannan, Yui Hei Jasper Chiu, Casslynn W.Q. Koh, Choon Kong Yap, Edwin Kok Hao Lim et al. · 2024 · Figshare
  50. Additional file 2 of Associations between immune cell phenotypes and lung cancer subtypes: insights from mendelian randomization analysis
    Zheng, Jin-Min, Lou, Chen-Xi, Huang, Yu-Liang, Song, Wen-Tao, Luo, Yi-Chen, Guanyong Mo, Tan, Lin-Yuan, Chen, Shang-Wei, Baijun Li · 2024 · Figshare
  51. Additional file 4 of Associations between immune cell phenotypes and lung cancer subtypes: insights from mendelian randomization analysis
    Zheng, Jin-Min, Lou, Chen-Xi, Huang, Yu-Liang, Song, Wen-Tao, Luo, Yi-Chen, Guanyong Mo, Tan, Lin-Yuan, Chen, Shang-Wei, Baijun Li · 2024 · Figshare
  52. Additional file 1 of Edible and cation-free kiwi fruit derived vesicles mediated EGFR-targeted siRNA delivery to inhibit multidrug resistant lung cancer
    Huang, Haoying, Yi, Xiaohan, Wei, Qingyun, Li, Mengyuan, Cai, Xueting, Lv, Yan, Weng, Ling, Yujie Mao, Fan, Weiwei, Zhao, Mengmeng et al. · 2024 · Figshare
  53. Additional file 6 of Associations between immune cell phenotypes and lung cancer subtypes: insights from mendelian randomization analysis
    Zheng, Jin-Min, Lou, Chen-Xi, Huang, Yu-Liang, Song, Wen-Tao, Luo, Yi-Chen, Guanyong Mo, Tan, Lin-Yuan, Chen, Shang-Wei, Baijun Li · 2024 · Figshare
  54. Additional file 1 of A systematic dissection of the epigenomic heterogeneity of lung adenocarcinoma reveals two different subclasses with distinct prognosis and core regulatory networks
    Chongze Yuan, Chen, Haojie, Shiqi Tu, Huang, Hsin-Yi, Pan, Yunjian, Xiuqi Gui, Muyu Kuang, Shen, Xuxia, Zheng, Qiang, Zhang, Yang et al. · 2021 · Figshare
  55. Additional file 2 of TMPRSS2 is a tumor suppressor and its downregulation promotes antitumor immunity and immunotherapy response in lung adenocarcinoma
    Zhixian Liu, Lu, Qiqi, Zhang, Zhilan, Qiushi Feng, Xiaosheng Wang · 2024 · Figshare
  56. Additional file 8 of Functional heterogeneity of cancer-associated fibroblasts with distinct neoadjuvant immunotherapy plus chemotherapy response in esophageal squamous cell carcinoma
    Jiang, Jun, Xu, Chao, Han, Donghui, Lu, Yuan, Yang, Fa, Wang, Jiawei, Yan, Xiaolong, Mu, Xiaorong, Zhang, Jipeng, Chenghui Jia et al. · 2024 · Figshare
  57. Additional file 1 of Associations between immune cell phenotypes and lung cancer subtypes: insights from mendelian randomization analysis
    Zheng, Jin-Min, Lou, Chen-Xi, Huang, Yu-Liang, Song, Wen-Tao, Luo, Yi-Chen, Guanyong Mo, Tan, Lin-Yuan, Chen, Shang-Wei, Baijun Li · 2024 · Figshare
  58. Additional file 1 of TMPRSS2 is a tumor suppressor and its downregulation promotes antitumor immunity and immunotherapy response in lung adenocarcinoma
    Zhixian Liu, Lu, Qiqi, Zhang, Zhilan, Qiushi Feng, Xiaosheng Wang · 2024 · Figshare
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