Alumni
Suhas Vasaikar
2015 – 2018
Now: Senior Scientist, Allen Institute
Postdoctoral Research Associate (2015–2018)
Publications (18)
Neill NJ, Satpathy S, Krug K, Meena JK, Ramesh Babu N, Calderon C, Reed D, Weber MJ, Dobrolecki LE, Lewis A, Sallas C, Anurag M, Holloway KR, Huang C, Vasaikar S, Cardenas MF, Kim BJ, Chan DW, Avanessian SC, Tyagi S, Orellana M, Mao S, Li H, Gong F, Kurley SJ, Meerbrey KL, Olson CM, Nair A, Sun T, Chung HC, Bowling EA, Wang JH, Zhang P, Xiao P, Yang D, Stossi F, Polley MC, Saltzman AB, Mundt F, Mani DR, Gillette MA, Hilsenbeck SG, Miles G, Gutierrez C, Osborne CK, Lin CY, Gray NS, Sun J, Wheeler DA, Perou CM, Malovannaya A, Lewis MT, Zhang B, Ellis MJ, Carr SA, Westbrook TF.
Cancer Discov., in press, 2025.
Bhat R, Thangavel H, Abdulkareem NM, Vasaikar S, De Angelis C, Bae L, Cataldo ML, Nanda S, Fu X, Zhang B, Schiff R, Trivedi MV.
Sci Rep., 12(1):1972, 2022
Petrosyan V, Dobrolecki LE, Thistlethwaite L, Lewis AN, Sallas C, Srinivasan RR, Lei JT, Kovacevic V, Obradovic P, Ellis MJ, Osborne CK, Rimawi MF, Pavlick A, Shafaee MN, Dowst H, Jain A, Saltzman AB, Malovannaya A, Marangoni E, Welm AL, Welm BE, Li S, Wulf GM, Sonzogni O, Huang C, Vasaikar S, Hilsenbeck SG, Zhang B, Milosavljevic A, Lewis MT.
iScience, 26(1):105799, 2022.
A proteogenomic portrait of lung squamous cell carcinoma.
Satpathy S#, Krug K#, Jean Beltran PM#, Savage SR#, Petralia F, Kumar-Sinha C, Dou Y, Reva B, Kane MH, Avanessian SC, Vasaikar SV, Krek A, Lei JT, Jaehnig EJ, Omelchenko T, Geffen Y, Bergstrom EJ, Stathias V, Christianson KE, Heiman DI, Cieslik MP, Cao S, Song X, Ji J, Liu W, Li K, Wen B, Li Y, Gümüş ZH, Selvan ME, Soundararajan R, Visal TH, Raso MG, Parra ER, Babur Ö, Vats P, Anand S, Schraink T, Cornwell M, Rodrigues FM, Zhu H, Mo CK, Zhang Y, da Veiga Leprevost F, Huang C, Chinnaiyan AM, Wyczalkowski MA, Omenn GS, Newton CJ, Schurer S, Ruggles KV, Fenyö D, Jewell SD, Thiagarajan M, Mesri M, Rodriguez H, Mani SA, Udeshi ND, Getz G, Suh J, Li QK, Hostetter G, Paik PK, Dhanasekaran SM, Govindan R, Ding L, Robles AI, Clauser KR, Nesvizhskii AI, Wang P, Carr SA@, Zhang B@, Mani DR@, Gillette MA@; Clinical Proteomic Tumor Analysis Consortium.
Cell, 184(16):4348-4371, 2021. (# first authors; @ corresponding authors)
Abdulkareem NM, Bhat R, Qin L, Vasaikar S, Gopinathan A, Mitchell T, Shea MJ, Nanda S, Thangavel H, Zhang B, De Angelis C, Schiff R, Trivedi MV.
FASEB J, 35(7):e21719, 2021
Proteogenomic Characterization of Endometrial Carcinoma.
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, Czekański A, Jędryka 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@, Fenyö D@; Clinical Proteomic Tumor Analysis Consortium.
Cell, 180(4):729-748, 2020 (# first authors; @ corresponding authors)
Microscaled proteogenomic methods for precision oncology.
Satpathy S#@, Jaehnig EJ#, Krug K, Kim BJ, Saltzman AB, Chan DW, Holloway KR, Anurag M, Huang C, Singh P, Gao A, Namai N, Dou Y, Wen B, Vasaikar SV, Mutch D, Watson MA, Ma C, Ademuyiwa FO, Rimawi MF, Schiff R, Hoog J, Jacobs S, Malovannaya A, Hyslop T, Clauser KR, Mani DR, Perou CM, Miles G, Zhang B, Gillette MA, Carr SA@, Ellis MJ@.
Nat Commun, 11(1):532, 2020 (# first authors; @ corresponding authors)
Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma.
Gillette MA, Satpathy S, Cao S, Dhanasekaran SM, Vasaikar SV, Krug K, Petralia F, Li Y, Liang WW, Reva B, Krek A, Ji J, Song X, Liu W, Hong R, Yao L, Blumenberg L, Savage SR, Wendl MC, Wen B, Li K, Tang LC, MacMullan MA, Avanessian SC, Kane MH, Newton CJ, Cornwell M, Kothadia RB, Ma W, Yoo S, Mannan R, Vats P, Kumar-Sinha C, Kawaler EA, Omelchenko T, Colaprico A, Geffen Y, Maruvka YE, da Veiga Leprevost F, Wiznerowicz M, Gümüş ZH, Veluswamy RR, Hostetter G, Heiman DI, Wyczalkowski MA, Hiltke T, Mesri M, Kinsinger CR, Boja ES, Omenn GS, Chinnaiyan AM, Rodriguez H, Li QK, Jewell SD, Thiagarajan M, Getz G, Zhang B, Fenyö D, Ruggles KV, Cieslik MP, Robles AI, Clauser KR, Govindan R, Wang P, Nesvizhskii AI, Ding L, Mani DR, Carr SA, Clinical Proteomic Tumor Analysis Consortium.
Cell, 182(1):200-225.e35., 2020.
Neurofibromin Is an Estrogen Receptor-α Transcriptional Co-repressor in Breast Cancer.
Zheng ZY, Anurag M, Lei JT, Cao J, Singh P, Peng J, Kennedy H, Nguyen NC, Chen Y, Lavere P, Li J, Du XH, Cakar B, Song W, Kim BJ, Shi J, Seker S, Chan DW, Zhao GQ, Chen X, Banks KC, Lanman RB, Shafaee MN, Zhang XH, Vasaikar S, Zhang B, Hilsenbeck SG, Li W, Foulds CE, Ellis MJ, Chang EC.
Cancer Cell, 37(3):387-402, 2020.
Immune Checkpoint Profiles in Luminal B Breast Cancer (Alliance).
Anurag M, Zhu M, Huang C, Vasaikar S, Wang J, Hoog J, Burugu S, Gao D, Suman V, Zhang XH, Zhang B, Nielsen T, Ellis MJ.
J Natl Cancer Inst, 112(7):737-746, 2020
Proteogenomic analysis of human colon cancer reveals new therapeutic opportunities.
Vasaikar S#, Huang C#, Wang X#, Petyuk VA#, Savage SR#, Wen B, Dou Y, Zhang Y, Shi Z, Arshad OA, Gritsenko MA, Zimmerman LJ, McDermott JE, Clauss TR, Moore RJ, Zhao R, Monroe ME, Wang YT, Chambers MC, Slebos RJC, Lau KS, Mo Q, Ding L, Ellis M, Thiagarajan M, Kinsinger CR, Rodriguez H, Smith RD, Rodland KD@, Liebler DC@, Liu T@, Zhang B@, Clinical Proteomic Tumor Analysis Consortium.
Cell, 177(4):1035-1049, 2019 (# first authors; @ corresponding authors)
Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma.
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, Geizler 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.
Cell, 179(4):964-983, 2019
Sato S, Vasaikar S, Eskaros A, Kim Y, Lewis JS, Zhang B, Zijlstra A, Weaver AM.
JCI Insight, doi: 10.1172/jci.insight.132447, 2019
Thangavel H, Angelis C, Vasaikar S, Bhat R, Jolly MK, Nagi C, Creighton CJ, Chen F, Dobrolecki LE, George JT, Kumar T, Abdulkareem NM, Mao S, Nardone A, Rimawi M, Osborne CK, Lewis MT, Levine H, Zhang B, Schiff R, Giuliano M, Trivedi MV.
J Clin Med, 8(11). pii: E1772, 2019
LinkedOmics: analyzing multi-omics data within and across 32 cancer types.
Vasaikar SV, Straub P, Wang J, Zhang B.
Nucleic Acids Res, 46(D1):D956-D963, 2018
DLAD4U: deriving and prioritizing disease lists from PubMed literature.
Shen J, Vasaikar S, Zhang B.
BMC Bioinformatics, 19(Suppl 17):495, 2018
Wang J, Vasaikar S, Shi Z, Greer M, Zhang B.
Nucleic Acids Res, 45(W1):W130-W137, 2017
Wang J#, Mouradov D#, Wang X#, Jorissen RN, Chambers MC, Zimmerman LJ, Vasaikar S, Love CG, Li S, Lowes K, Leuchowius KJ, Jousset H, Weinstock J, Yau C, Mariadason J, Shi Z, Ban Y, Chen X, Coffey RJC, Slebos RJC, Burgess AW, Liebler DC, Zhang B@, Sieber OM@.
Gastroenterology, 153(4):1082-1095, 2017 (# first authors; @ corresponding authors)