2020

  1. Zhang L, Silva TC, Young JI, Gomez L, Schmidt MA, Hamilton-Nelson KL, Kunkle BW, Chen X, Martin ER, Wang L* (2020). Epigenome-wide meta-analysis of DNA methylation differences in prefrontal cortex implicates the immune processes in Alzheimer's disease. Nature Communications. 11, 6114 IF:12.12 
  2. Colaprico A*, Olsen C, Bailey MH, Odom GJ, Terkelsen T, Silva TC, Olsen AV, Cantini L, Zinovyev A, Barillot E, Noushmehr H, Bertoli G, Castiglioni I, Cava C, Bontempi G, Chen XS*, Papaleo E* (2020). Interpreting pathways to discover cancer driver genes with Moonlight. Nature Communications. 11(1):69. IF:12.12
  3. Odom GJ, Ban Y, Colaprico A, Liu L, Silva TC, Sun X, Pico AR, Zhang B, Wang L*, Chen X* (2020) pathwayPCA: an R package for integrative pathway analysis with modern PCA methodology and gene selection. Proteomics. In Press.  [IF: 3.106] 
  4. Wang P, Li X, Gao Y, Guo Q, Ning S, Zhang Y, Shang S, Wang J, Wang Y, Zhi H, Fang Y, Shen W, Zhang G*, Chen SX*, Li X*. LnCeVar: a comprehensive database of genomic variations that disturb ceRNA network regulation. Nucleic Acids Research. 2020;48(D1):D111-D7. IF:11.147
  5. Y Zhang, P Wang, X Li, S Ning, X Li*, Y Cao*,  SX Chen* (2020) GABC: A Comprehensive Resource and Genome Atlas for Breast Cancer. International Journal of Cancer. In Press.
  6. Hsiung, A Moro, Y Ban, X Chen, AS Savio, R Hernandez, TR Malek (2020) Acute Lipopolysaccharide-Induced Inflammation Lowers IL-2R Signaling and the Proliferative Potential of Regulatory T Cells. ImmunoHorizons 2020, 4 (12) 809-824
  7. Chelsea A Isom, Erika Kristen Bisgaard, Kendrick M Campbell, Cathleen Courtney, Caroline Erickson, David A Faber, Paul G Gauger, Jacob A Greenberg, Al-Faraaz Kassam, John T Mullen, Amanda Phares, R Cutler Quillin III, Edgardo S Salcedo, Andrew J Schaffer, Denny Scaria, Christopher C Stahl, Paul E Wise, Rondi M Kauffmann, Xi Chen, J Joshua Smith, Kyla P Terhune (2020) Does Intentional Support of Degree Programs in General Surgery Residency Affect Research Productivity or Pursuit of Academic Surgery? A Multi-Institutional Study. Journal of Surgical Education 77(6) e34-e38
  8. Michael A Gillette, Shankha Satpathy, Song Cao, Saravana M Dhanasekaran, Suhas V Vasaikar, Karsten Krug, Francesca Petralia, Yize Li, Wen-Wei Liang, Boris Reva, Azra Krek, Jiayi Ji, Xiaoyu Song, Wenke Liu, Runyu Hong, Lijun Yao, Lili Blumenberg, Sara R Savage, Michael C Wendl, Bo Wen, Kai Li, Lauren C Tang, Melanie A MacMullan, Shayan C Avanessian, M Harry Kane, Chelsea J Newton, MacIntosh Cornwell, Ramani B Kothadia, Weiping Ma, Seungyeul Yoo, Rahul Mannan, Pankaj Vats, Chandan Kumar-Sinha, Emily A Kawaler, Tatiana Omelchenko, Antonio Colaprico, Yifat Geffen, Yosef E Maruvka, Felipe da Veiga Leprevost, Maciej Wiznerowicz, Zeynep H Gümüş, Rajwanth R Veluswamy, Galen Hostetter, David I Heiman, Matthew A Wyczalkowski, Tara Hiltke, Mehdi Mesri, Christopher R Kinsinger, Emily S Boja, Gilbert S Omenn, Arul M Chinnaiyan, Henry Rodriguez, Qing Kay Li, Scott D Jewell, Mathangi Thiagarajan, Gad Getz, Bing Zhang, David Fenyö, Kelly V Ruggles, Marcin P Cieslik, Ana I Robles, Karl R Clauser, Ramaswamy Govindan, Pei Wang, Alexey I Nesvizhskii, Li Ding, DR Mani, Steven A Carr, Alex Webster, Alicia Francis, Alyssa Charamut, Amanda G Paulovich, Amy M Perou, Andrew K Godwin, Andrii Karnuta, Annette Marrero-Oliveras, Barbara Hindenach, Barbara Pruetz, Bartosz Kubisa, Brian J Druker, Chet Birger, Corbin D Jones, Dana R Valley, Daniel C Rohrer, Daniel Cui Zhou, Daniel W Chan, David Chesla, David J Clark, Dmitry Rykunov, Donghui Tan, Elena V Ponomareva, Elizabeth Duffy, Eric J Burks, Eric E Schadt, Erik J Bergstrom, Eugene S Fedorov, Ewa Malc, George D Wilson, Hai-Quan Chen, Halina M Krzystek, Hongwei Liu, Houston Culpepper, Hua Sun, Hui Zhang, Jacob Day, James Suh, Jeffrey R Whiteaker, Jennifer Eschbacher, John McGee, Karen A Ketchum, Karin D Rodland, Karna Robinson, Katherine A Hoadley, Kei Suzuki, Ki Sung Um, Kim Elburn, Liang-Bo Wang, Lijun Chen, Linda Hannick, Liqun Qi, Lori J Sokoll, Małgorzata Wojtyś, Marcin J Domagalski, Marina A Gritsenko, Mary B Beasley, Matthew E Monroe, Matthew J Ellis, Maureen Dyer, Meghan C Burke, Melissa Borucki, Meng-Hong Sun, Michael H Roehrl, Michael J Birrer, Michael Noble, Michael Schnaubelt, Michael Vernon, Michelle Chaikin, Mikhail Krotevich, Munziba Khan, Myvizhi Esai Selvan, Nancy Roche, Nathan J Edwards, Negin Vatanian, Olga Potapova, Pamela Grady, Peter B McGarvey, Piotr Mieczkowski, Pushpa Hariharan, Rashna Madan, Ratna R Thangudu (2020) Proteogenomic characterization reveals therapeutic vulnerabilities in lung adenocarcinoma. Cell 182(1): 200-225
  9. Karsten Krug, Eric J Jaehnig, Shankha Satpathy, Lili Blumenberg, Alla Karpova, Meenakshi Anurag, George Miles, Philipp Mertins, Yifat Geffen, Lauren C Tang, David I Heiman, Song Cao, Yosef E Maruvka, Jonathan T Lei, Chen Huang, Ramani B Kothadia, Antonio Colaprico, Chet Birger, Jarey Wang, Yongchao Dou, Bo Wen, Zhiao Shi, Yuxing Liao, Maciej Wiznerowicz, Matthew A Wyczalkowski, Xi Steven Chen, Jacob J Kennedy, Amanda G Paulovich, Mathangi Thiagarajan, Christopher R Kinsinger, Tara Hiltke, Emily S Boja, Mehdi Mesri, Ana I Robles, Henry Rodriguez, Thomas F Westbrook, Li Ding, Gad Getz, Karl R Clauser, David Fenyö, Kelly V Ruggles, Bing Zhang, DR Mani, Steven A Carr, Matthew J Ellis, Michael A Gillette, Shayan C Avanessian, Shuang Cai, Daniel Chan, Xian Chen, Nathan J Edwards, Andrew N Hoofnagle, M Harry Kane, Karen A Ketchum, Eric Kuhn, Douglas A Levine, Shunqiang Li, Daniel C Liebler, Tao Liu, Jingqin Luo, Subha Madhavan, Chris Maher, Jason E McDermott, Peter B McGarvey, Mauricio Oberti, Akhilesh Pandey, Samuel H Payne, David F Ransohoff, Robert C Rivers, Karin D Rodland, Paul Rudnick, Melinda E Sanders, Kenna M Shaw, Ie-Ming Shih, Robbert JC Slebos, Richard D Smith, Michael Snyder, Stephen E Stein, David L Tabb, Ratna R Thangudu, Stefani Thomas, Yue Wang, Forest M White, Jeffrey R Whiteaker, Gordon A Whiteley, Hui Zhang, Zhen Zhang, Yingming Zhao, Heng Zhu, Lisa J Zimmerman (2020) Proteogenomic landscape of breast cancer tumorigenesis and targeted therapy. Cell 183(5):1436-1456.e31.
  10. Julia Fritsch, Luis Garces, Maria A Quintero, Judith Pignac-Kobinger, Ana M Santander, Irina Fernández, Yuguang J Ban, Deukwoo Kwon, Matthew C Phillips, Karina Knight, Qingqing Mao, Rebeca Santaolalla, Xi S Chen, Mukil Maruthamuthu, Norma Solis, Oriana M Damas, David H Kerman, Amar R Deshpande, John E Lewis, Chi Chen, Maria T Abreu (2020) Low-fat, High-fiber Diet Reduces Markers of Inflammation and Dysbiosis and Improves Quality of Life in Patients With Ulcerative Colitis. Clinical Gastroenterology and Hepatology. In Press
  11. Francesca Petralia, Nicole Tignor, Boris Reva, Mateusz Koptyra, Shrabanti Chowdhury, Dmitry Rykunov, Azra Krek, Weiping Ma, Yuankun Zhu, Jiayi Ji, Anna Calinawan, Jeffrey R Whiteaker, Antonio Colaprico, Vasileios Stathias, Tatiana Omelchenko, Xiaoyu Song, Pichai Raman, Yiran Guo, Miguel A Brown, Richard G Ivey, John Szpyt, Sanjukta Guha Thakurta, Marina A Gritsenko, Karl K Weitz, Gonzalo Lopez, Selim Kalayci, Zeynep H Gümüş, Seungyeul Yoo, Felipe da Veiga Leprevost, Hui-Yin Chang, Karsten Krug, Lizabeth Katsnelson, Ying Wang, Jacob J Kennedy, Uliana J Voytovich, Lei Zhao, Krutika S Gaonkar, Brian M Ennis, Bo Zhang, Valerie Baubet, Lamiya Tauhid, Jena V Lilly, Jennifer L Mason, Bailey Farrow, Nathan Young, Sarah Leary, Jamie Moon, Vladislav A Petyuk, Javad Nazarian, Nithin D Adappa, James N Palmer, Robert M Lober, Samuel Rivero-Hinojosa, Liang-Bo Wang, Joshua M Wang, Matilda Broberg, Rosalie K Chu, Ronald J Moore, Matthew E Monroe, Rui Zhao, Richard D Smith, Jun Zhu, Ana I Robles, Mehdi Mesri, Emily Boja, Tara Hiltke, Henry Rodriguez, Bing Zhang, Eric E Schadt, DR Mani, Li Ding, Antonio Iavarone, Maciej Wiznerowicz, Stephan Schürer, Xi S Chen, Allison P Heath, Jo Lynne Rokita, Alexey I Nesvizhskii, David Fenyö, Karin D Rodland, Tao Liu, Steven P Gygi, Amanda G Paulovich, Adam C Resnick, Phillip B Storm, Brian R Rood, Pei Wang, Alicia Francis, Allison M Morgan, Angela J Waanders, Angela N Viaene, Anna Maria Buccoliero, Arul M Chinnaiyan, Carina A Leonard, Cassie N Kline, Chiara Caporalini, Christopher R Kinsinger, Chunde Li, David E Kram, Derek Hanson, Elizabeth Appert, Emily A Kawaler, Eric H Raabe, Eric M Jackson, Jeffrey P Greenfield, Gabrielle S Stone, Gad Getz, Gerald Grant, Guo Ci Teo, Ian F Pollack, Jason E Cain, Jessica B Foster, Joanna J Phillips, July E Palma, Karen A Ketchum, Kelly V Ruggles, Lili Blumenberg, Macintosh Cornwell, Mahdi Sarmady, Marcin J Domagalski, Marcin P Cieślik, Mariarita Santi, Marilyn M Li, Matthew J Ellis, Matthew A Wyczalkowski, Meghan Connors, Mirko Scagnet, Nalin Gupta, Nathan J Edwards, Nicholas A Vitanza, Olena M Vaske, Oren Becher, Peter B McGarvey, Ron Firestein, Sabine Mueller, Samuel G Winebrake, Saravana Mohan Dhanasekaran, Shuang Cai, Sonia Partap, Tatiana Patton, Toan Le, Travis D Lorentzen, Wenke Liu, William E Bocik (2020). Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer. Cell 183(7): 1962-1985 e1931.
  12. Dou Y, Kawaler EA, Cui Zhou D, Gritsenko MA, Huang C, Blumenberg L, Karpova A, Petyuk VA, Savage SR, Satpathy S, Liu W, Wu Y, Tsai CF, Wen B, Li Z, Cao S, Moon J, Shi Z, Cornwell M, Wyczalkowski MA, Chu RK, Vasaikar S, Zhou H, Gao Q, Moore RJ, Li K, Sethuraman S, Monroe ME, Zhao R, Heiman D, Krug K, Clauser K, Kothadia R, Maruvka Y, Pico AR, Oliphant AE, Hoskins EL, Pugh SL, Beecroft SJI, Adams DW, Jarman JC, Kong A, Chang HY, Reva B, Liao Y, Rykunov D, Colaprico A, Chen XS, Czekanski A, Jedryka M, Matkowski R, Wiznerowicz M, Hiltke T, Boja E, Kinsinger CR, Mesri M, Robles AI, Rodriguez H, Mutch D, Fuh K, Ellis MJ, DeLair D, Thiagarajan M, Mani DR, Getz G, Noble M, Nesvizhskii AI, Wang P, Anderson ML, Levine DA, Smith RD, Payne SH, Ruggles KV, Rodland KD, Ding L, Zhang B, Liu T, Fenyo D, Clinical Proteomic Tumor Analysis C. Proteogenomic Characterization of Endometrial Carcinoma. Cell. 2020;180(4):729-48 e26
  13. Clark DJ, Dhanasekaran SM, Petralia F, Pan J, Song X, Hu Y, da Veiga Leprevost F, Reva B, Lih TM, Chang HY, Ma W, Huang C, Ricketts CJ, Chen L, Krek A, Li Y, Rykunov D, Li QK, Chen LS, Ozbek U, Vasaikar S, Wu Y, Yoo S, Chowdhury S, Wyczalkowski MA, Ji J, Schnaubelt M, Kong A, Sethuraman S, Avtonomov DM, Ao M, Colaprico A, Cao S, Cho KC, Kalayci S, Ma S, Liu W, Ruggles K, Calinawan A, Gümüş ZH, Geiszler D, Kawaler E, Teo GC, Wen B, Zhang Y, Keegan S, Li K, Chen F, Edwards N, Pierorazio PM, Chen XS, Pavlovich CP, Hakimi AA, Brominski G, Hsieh JJ, Antczak A, Omelchenko T, Lubinski J, Wiznerowicz M, Linehan WM, Kinsinger CR, Thiagarajan M, Boja ES, Mesri M, Hiltke T, Robles AI, Rodriguez H, Qian J, Fenyö D, Zhang B, Ding L, Schadt E, Chinnaiyan AM, Zhang Z, Omenn GS, Cieslik M, Chan DW, Nesvizhskii AI, Wang P, Zhang H, Consortium CPTA. Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma. Cell. 2019;179(4):964-83.e31. IF:36.216
  14. L Li, X Hu, JE Eid, AE Rosenberg, BA Wilky, Y Ban, X Sun, K Galoian, J DeSalvo, J Yue, XS Chen, M Blonska and JC Trent (2020) Mutant IDH1 Depletion Downregulates Integrins and Impairs Chondrosarcoma Growth. Cancers 12(1) 14
  15. Rajan SS, Amin AD, Li L, Rolland DC, Li H, Kwon D, Kweh MF, Arumov A, Roberts ER, Yan A, Basrur V, Elenitoba-Johnson KSJ, Chen XS, Puvvada SD, Lussier YA, Bilbao D, Lim MS, Schatz JH. The mechanism of cancer drug addiction in ALK-positive T-Cell lymphoma. Oncogene. 2020;39(10):2103-17.
  16. Jing Y, Chavez V, Khatwani N, Ban Y, Espejo AP, Chen X, Merchan JR. In vivo antitumor activity by dual stromal and tumor-targeted oncolytic measles viruses. Cancer Gene Therapy. 2020:1-13.
  17. Kandimalla R, Shimura T, Mallik S, Sonohara F, Tsai S, Evans DB, Kim SC, Baba H, Kodera Y, Hoff DV, Chen X, Ajay Goel (2020) Identification of Serum miRNA Signature and Establishment of a Nomogram for Risk Stratification in Patients With Pancreatic Ductal Adenocarcinoma. Annals of Surgery. In Press. [IF: 9.203]
  18. Caunca MR, Wang L, Cheung YK, Alperin N, Lee SH, Elkind MSV, Sacco RL, Wright CB, Rundek T. (2020) Machine learning-based estimation of cognitive performance using regional brain MRI markers: the Northern Manhattan Study. Brain Imaging and Behavior. In Press. [IF: 3.418]
  19. Burgueno JF, Reich A, Hazime H, Quintero MA, Fernandez I, Fritsch J, Santander AM, Brito N, Damas OM, Deshpande A, Kerman DH, Zhang L, Gao Z, Ban Y, Wang L, Pignac-Kobinger J, Abreu MT (2020) Expression of SARS-CoV-2 Entry Molecules ACE2 and TMPRSS2 in the Gut of Patients With IBD. Inflammatory Bowel Diseases. In Press. [IF: 4.005]
  20. Benatar M, Zhang L, Wang L, Granit V, Statland J, Barohn R, Swenson A, Ravits J, Jackson C, Burns TM, Trivedi J, Pioro EP, Caress J, Katz J, McCauley JL, Rademakers R, Malaspina A, Ostrow LW, Wuu J (2020) Validation of serum neurofilaments as prognostic and potential pharmacodynamic biomarkers for ALS. Neurology. [IF: 8.320]