Faculty Appointments
Assistant Professor of Molecular Physiology & Biophysics
Assistant Professor of Biochemistry
Education
Ph.D., Biophysics, University of California, San Francisco, California
Research Description
The Wankowicz lab aims to elucidate the role of entropy in substrate specificity and catalysis, providing a more comprehensive thermodynamic understanding of enzyme function.
We go about uncovering this in three ways:
1) Building computational algorithms to improve the fit between experimental structural biology data and experimental models.
2) Structural bioinformatics analysis to assign thermodynamic parameters (enthalpy and entropy) to structural models
3) Biophysical and structural prospective testing of entropy in binding and catalysis
WANKOWICZLAB.COM
We go about uncovering this in three ways:
1) Building computational algorithms to improve the fit between experimental structural biology data and experimental models.
2) Structural bioinformatics analysis to assign thermodynamic parameters (enthalpy and entropy) to structural models
3) Biophysical and structural prospective testing of entropy in binding and catalysis
WANKOWICZLAB.COM
Research Keywords
Structural Biology, Machine Learning, Thermodynamics, Enzymes, Ligand Binding, Computational, Bioinformatics
Publications
Wankowicz SA, Fraser JS. Comprehensive encoding of conformational and compositional protein structural ensembles through the mmCIF data structure. IUCrJ. 2024 Jul 7/1/2024; 11(Pt 4): 494-501. PMID: 38958015, PMCID: PMC11220883, PII: S2052252524005098, DOI: 10.1107/S2052252524005098, ISSN: 2052-2525.
Wankowicz SA, Ravikumar A, Sharma S, Riley B, Raju A, Hogan DW, Flowers J, van den Bedem H, Keedy DA, Fraser JS. Automated multiconformer model building for X-ray crystallography and cryo-EM. Elife. 2024 Jun 6/21/2024; 12: PMID: 38904665, PMCID: PMC11192534, PII: 90606, DOI: 10.7554/eLife.90606, ISSN: 2050-084X.
Díaz RE, Wankowicz SA. Ten recommendations for hosting a Diversity, Equity, Inclusion, and Justice (DEIJ) journal club. PLoS Comput Biol. 2024 Jun; 20(6): e1012166. PMID: 38843155, PMCID: PMC11156311, PII: PCOMPBIOL-D-23-01970, DOI: 10.1371/journal.pcbi.1012166, ISSN: 1553-7358.
Wankowicz SA, Ravikumar A, Sharma S, Riley BT, Raju A, Flowers J, Hogan D, van den Bedem H, Keedy DA, Fraser JS. Uncovering Protein Ensembles: Automated Multiconformer Model Building for X-ray Crystallography and Cryo-EM. BioRxiv. 2024 Apr 4/30/2024; PMID: 37425870, PMCID: PMC10327213, PII: 2023.06.28.546963, DOI: 10.1101/2023.06.28.546963, ISSN: 2692-8205.
Du S, Wankowicz SA, Yabukarski F, Doukov T, Herschlag D, Fraser JS. Refinement of Multiconformer Ensemble Models from Multi-temperature X-ray Diffraction Data. BioRxiv. 2023 May 5/5/2023; PMID: 37205593, PMCID: PMC10187334, PII: 2023.05.05.539620, DOI: 10.1101/2023.05.05.539620, ISSN: 2692-8205.
Du S, Wankowicz SA, Yabukarski F, Doukov T, Herschlag D, Fraser JS. Refinement of multiconformer ensemble models from multi-temperature X-ray diffraction data. Methods Enzymol [print-electronic]. 2023; 688: 223-54. PMID: 37748828, PMCID: PMC10637719, PII: S0076-6879(23)00214-8, DOI: 10.1016/bs.mie.2023.06.009, ISSN: 1557-7988.
Wankowicz SA, de Oliveira SH, Hogan DW, van den Bedem H, Fraser JS. Ligand binding remodels protein side-chain conformational heterogeneity. Elife. 2022 Mar 3/21/2022; 11: PMID: 35312477, PMCID: PMC9084896, PII: 74114, DOI: 10.7554/eLife.74114, ISSN: 2050-084X.
Tewari AK, Cheung ATM, Crowdis J, Conway JR, Camp SY, Wankowicz SA, Livitz DG, Park J, Lis RT, Bosma-Moody A, He MX, AlDubayan SH, Zhang Z, McKay RR, Leshchiner I, Brown M, Balk SP, Getz G, Taplin ME, Van Allen EM. Molecular features of exceptional response to neoadjuvant anti-androgen therapy in high-risk localized prostate cancer. Cell Rep. 2021 Sep 9/7/2021; 36(10): 109665. PMID: 34496240, PII: S2211-1247(21)01109-8, DOI: 10.1016/j.celrep.2021.109665, ISSN: 2211-1247.
Lawson CL, Kryshtafovych A, Adams PD, Afonine PV, Baker ML, Barad BA, Bond P, Burnley T, Cao R, Cheng J, Chojnowski G, Cowtan K, Dill KA, DiMaio F, Farrell DP, Fraser JS, Herzik MA, Hoh SW, Hou J, Hung LW, Igaev M, Joseph AP, Kihara D, Kumar D, Mittal S, Monastyrskyy B, Olek M, Palmer CM, Patwardhan A, Perez A, Pfab J, Pintilie GD, Richardson JS, Rosenthal PB, Sarkar D, Schäfer LU, Schmid MF, Schröder GF, Shekhar M, Si D, Singharoy A, Terashi G, Terwilliger TC, Vaiana A, Wang L, Wang Z, Wankowicz SA, Williams CJ, Winn M, Wu T, Yu X, Zhang K, Berman HM, Chiu W. Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge. Nat Methods [print-electronic]. 2021 Feb; 18(2): 156-64. PMID: 33542514, PMCID: PMC7864804, PII: 10.1038/s41592-020-01051-w, DOI: 10.1038/s41592-020-01051-w, ISSN: 1548-7105.
Riley BT, Wankowicz SA, de Oliveira SHP, van Zundert GCP, Hogan DW, Fraser JS, Keedy DA, van den Bedem H. QFit 3: Protein and ligand multiconformer modeling for X-ray crystallographic and single-particle cryo-EM density maps. Protein Sci [print-electronic]. 2021 Jan; 30(1): 270-85. PMID: 33210433, PMCID: PMC7737783, DOI: 10.1002/pro.4001, ISSN: 1469-896X.
Bellmunt J, Kim J, Reardon B, Perera-Bel J, Orsola A, Rodriguez-Vida A, Wankowicz SA, Bowden M, Barletta JA, Morote J, de Torres I, Juanpere N, Lloreta-Trull J, Hernandez S, Mouw KW, Taplin ME, Cejas P, Long HW, Van Allen EM, Getz G, Kwiatkowski DJ. Genomic Predictors of Good Outcome, Recurrence, or Progression in High-Grade T1 Non-Muscle-Invasive Bladder Cancer. Cancer Res [print-electronic]. 2020 Oct 10/15/2020; 80(20): 4476-86. PMID: 32868381, PMCID: PMC9361191, PII: 0008-5472.CAN-20-0977, DOI: 10.1158/0008-5472.CAN-20-0977, ISSN: 1538-7445.
Newberry RW, Arhar T, Costello J, Hartoularos GC, Maxwell AM, Naing ZZC, Pittman M, Reddy NR, Schwarz DMC, Wassarman DR, Wu TS, Barrero D, Caggiano C, Catching A, Cavazos TB, Estes LS, Faust B, Fink EA, Goldman MA, Gomez YK, Gordon MG, Gunsalus LM, Hoppe N, Jaime-Garza M, Johnson MC, Jones MG, Kung AF, Lopez KE, Lumpe J, Martyn C, McCarthy EE, Miller-Vedam LE, Navarro EJ, Palar A, Pellegrino J, Saylor W, Stephens CA, Strickland J, Torosyan H, Wankowicz SA, Wong DR, Wong G, Redding S, Chow ED, DeGrado WF, Kampmann M. Robust Sequence Determinants of a-Synuclein Toxicity in Yeast Implicate Membrane Binding. ACS Chem Biol [print-electronic]. 2020 Aug 8/21/2020; 15(8): 2137-53. PMID: 32786289, PMCID: PMC7442712, DOI: 10.1021/acschembio.0c00339, ISSN: 1554-8937.
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Meyer B, Roesch F, Vallet T, Mac Kain A, Miorin L, Moreno E, Naing ZZC, Zhou Y, Peng S, Shi Y, Zhang Z, Shen W, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Lyu J, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Rakesh R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Huang XP, Liu Y, Wankowicz SA, Bohn M, Safari M, Ugur FS, Koh C, Savar NS, Tran QD, Shengjuler D, Fletcher SJ, O'Neal MC, Cai Y, Chang JCJ, Broadhurst DJ, Klippsten S, Sharp PP, Wenzell NA, Kuzuoglu-Ozturk D, Wang HY, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Stroud RM, Frankel AD, Rosenberg OS, Verba KA, Agard DA, Ott M, Emerman M, Jura N, von Zastrow M, Verdin E, Ashworth A, Schwartz O, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor SN, Fraser JS, Gross JD, Sali A, Roth BL, Ruggero D, Taunton J, Kortemme T, Beltrao P, Vignuzzi M, García-Sastre A, Shokat KM, Shoichet BK, Krogan NJ. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature [print-electronic]. 2020 Jul; 583(7816): 459-68. PMID: 32353859, PMCID: PMC7431030, PII: 10.1038/s41586-020-2286-9, DOI: 10.1038/s41586-020-2286-9, ISSN: 1476-4687.
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, O'Meara MJ, Guo JZ, Swaney DL, Tummino TA, Huettenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Naing ZZC, Zhou Y, Peng S, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Shen W, Shi Y, Zhang Z, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Ramachandran R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Wankowicz SA, Bohn M, Sharp PP, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Roesch F, Vallet T, Meyer B, White KM, Miorin L, Rosenberg OS, Verba KA, Agard D, Ott M, Emerman M, Ruggero D, García-Sastre A, Jura N, von Zastrow M, Taunton J, Ashworth A, Schwartz O, Vignuzzi M, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor S, Fraser JS, Gross J, Sali A, Kortemme T, Beltrao P, Shokat K, Shoichet BK, Krogan NJ. A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. BioRxiv. 2020 Mar 3/27/2020; PMID: 32511329, PMCID: PMC7239059, PII: 2020.03.22.002386, DOI: 10.1101/2020.03.22.002386, ISSN: 2692-8205.
Kamran SC, Lennerz JK, Margolis CA, Liu D, Reardon B, Wankowicz SA, Van Seventer EE, Tracy A, Wo JY, Carter SL, Willers H, Corcoran RB, Hong TS, Van Allen EM. Integrative Molecular Characterization of Resistance to Neoadjuvant Chemoradiation in Rectal Cancer. Clin Cancer Res [print-electronic]. 2019 Sep 9/15/2019; 25(18): 5561-71. PMID: 31253631, PMCID: PMC6744983, PII: 1078-0432.CCR-19-0908, DOI: 10.1158/1078-0432.CCR-19-0908, ISSN: 1557-3265.
Gild P, Wankowicz SA, Sood A, von Landenberg N, Friedlander DF, Alanee S, Chun FKH, Fisch M, Menon M, Trinh QD, Bellmunt J, Abdollah F. Racial disparity in quality of care and overall survival among black vs. white patients with muscle-invasive bladder cancer treated with radical cystectomy: A national cancer database analysis. Urol Oncol [print-electronic]. 2018 Oct; 36(10): 469.e1-469.e11-469.e11. PMID: 30139659, PII: S1078-1439(18)30267-9, DOI: 10.1016/j.urolonc.2018.07.012, ISSN: 1873-2496.
Bellmunt J, Lalani AA, Jacobus S, Wankowicz SA, Polacek L, Takeda DY, Harshman LC, Wagle N, Moreno I, Lundgren K, Bossé D, Van Allen EM, Choueiri TK, Rosenberg JE. Everolimus and pazopanib (E/P) benefit genomically selected patients with metastatic urothelial carcinoma. Br J Cancer [print-electronic]. 2018 Sep; 119(6): 707-12. PMID: 30220708, PMCID: PMC6173710, PII: 10.1038/s41416-018-0261-0, DOI: 10.1038/s41416-018-0261-0, ISSN: 1532-1827.
Sonpavde G, Pond GR, Rosenberg JE, Choueiri TK, Bellmunt J, Regazzi AM, Mullane SA, Necchi A, Raggi D, Lee JL, Lee S, Simpson J, Derleth CL, Lin SW, Bajorin DF. Nomogram to Assess the Survival Benefit of New Salvage Agents for Metastatic Urothelial Carcinoma in the Era of Immunotherapy. Clin Genitourin Cancer [print-electronic]. 2018 Aug; 16(4): e961-e967-e967. PMID: 29706503, PMCID: PMC6697267, PII: S1558-7673(18)30089-2, DOI: 10.1016/j.clgc.2018.03.016, ISSN: 1938-0682.
Viswanathan SR, Ha G, Hoff AM, Wala JA, Carrot-Zhang J, Whelan CW, Haradhvala NJ, Freeman SS, Reed SC, Rhoades J, Polak P, Cipicchio M, Wankowicz SA, Wong A, Kamath T, Zhang Z, Gydush GJ, Rotem D, , Love JC, Getz G, Gabriel S, Zhang CZ, Dehm SM, Nelson PS, Van Allen EM, Choudhury AD, Adalsteinsson VA, Beroukhim R, Taplin ME, Meyerson M. Structural Alterations Driving Castration-Resistant Prostate Cancer Revealed by Linked-Read Genome Sequencing. Cell [print-electronic]. 2018 Jul 7/12/2018; 174(2): 433-447.e19-447.e19. PMID: 29909985, PMCID: PMC6046279, PII: S0092-8674(18)30648-2, DOI: 10.1016/j.cell.2018.05.036, ISSN: 1097-4172.
McKay RR, Bossé D, Xie W, Wankowicz SAM, Flaifel A, Brandao R, Lalani AA, Martini DJ, Wei XX, Braun DA, Van Allen E, Castellano D, De Velasco G, Wells JC, Heng DY, Fay AP, Schutz FA, Hsu J, Pal SK, Lee JL, Hsieh JJ, Harshman LC, Signoretti S, Motzer RJ, Feldman D, Choueiri TK. The Clinical Activity of PD-1/PD-L1 Inhibitors in Metastatic Non-Clear Cell Renal Cell Carcinoma. Cancer Immunol Res [print-electronic]. 2018 Jul; 6(7): 758-65. PMID: 29748390, PMCID: PMC6712567, PII: 2326-6066.CIR-17-0475, DOI: 10.1158/2326-6066.CIR-17-0475, ISSN: 2326-6074.
Teo MY, Bambury RM, Zabor EC, Jordan E, Al-Ahmadie H, Boyd ME, Bouvier N, Mullane SA, Cha EK, Roper N, Ostrovnaya I, Hyman DM, Bochner BH, Arcila ME, Solit DB, Berger MF, Bajorin DF, Bellmunt J, Iyer G, Rosenberg JE. Commentary on "DNA damage response and repair gene alterations are associated with improved survival in patients with platinum-treated advanced urothelial carcinoma.". Urol Oncol [print-electronic]. 2018 Jul; 36(7): 345-6. PMID: 29859727, PII: S1078-1439(18)30163-7, DOI: 10.1016/j.urolonc.2018.05.011, ISSN: 1873-2496.
de Velasco G, Wankowicz SA, Madison R, Ali SM, Norton C, Duquette A, Ross JS, Bossé D, Lalani AA, Miller VA, Stephens PJ, Young L, Hakimi AA, Signoretti S, Pal SK, Choueiri TK. Targeted genomic landscape of metastases compared to primary tumours in clear cell metastatic renal cell carcinoma. Br J Cancer [print-electronic]. 2018 May; 118(9): 1238-42. PMID: 29674707, PMCID: PMC5943584, PII: 10.1038/s41416-018-0064-3, DOI: 10.1038/s41416-018-0064-3, ISSN: 1532-1827.
Armenia J, Wankowicz SAM, Liu D, Gao J, Kundra R, Reznik E, Chatila WK, Chakravarty D, Han GC, Coleman I, Montgomery B, Pritchard C, Morrissey C, Barbieri CE, Beltran H, Sboner A, Zafeiriou Z, Miranda S, Bielski CM, Penson AV, Tolonen C, Huang FW, Robinson D, Wu YM, Lonigro R, Garraway LA, Demichelis F, Kantoff PW, Taplin ME, Abida W, Taylor BS, Scher HI, Nelson PS, de Bono JS, Rubin MA, Sawyers CL, Chinnaiyan AM, , Schultz N, Van Allen EM. The long tail of oncogenic drivers in prostate cancer. Nat Genet [print-electronic]. 2018 May; 50(5): 645-51. PMID: 29610475, PMCID: PMC6107367, PII: 10.1038/s41588-018-0078-z, DOI: 10.1038/s41588-018-0078-z, ISSN: 1546-1718.
Sevillano E, Werner L, Bossé D, Lalani AA, Wankowicz SAM, de Velasco G, Farina M, Lundgren K, Choueiri TK, González Del Alba A, Bellmunt J. Upper Tract Urothelial Carcinomas: Prognostic Factors and Outcomes in Patients With Non-Lymph Node Distant Metastasis. Clin Genitourin Cancer [print-electronic]. 2017 Dec; 15(6): e1089-e1094-e1094. PMID: 28864222, PII: S1558-7673(17)30209-4, DOI: 10.1016/j.clgc.2017.07.012, ISSN: 1938-0682.
Vetterlein MW, Wankowicz SAM, Seisen T, Lander R, Löppenberg B, Chun FK, Menon M, Sun M, Barletta JA, Choueiri TK, Bellmunt J, Trinh QD, Preston MA. Neoadjuvant chemotherapy prior to radical cystectomy for muscle-invasive bladder cancer with variant histology. Cancer [print-electronic]. 2017 Nov 11/15/2017; 123(22): 4346-55. PMID: 28743155, DOI: 10.1002/cncr.30907, ISSN: 1097-0142.
Wankowicz SAM, Werner L, Orsola A, Novak J, Bowden M, Choueiri TK, de Torres I, Morote J, Freeman GJ, Signoretti S, Bellmunt J. Differential Expression of PD-L1 in High Grade T1 vs Muscle Invasive Bladder Carcinoma and its Prognostic Implications. J Urol [print-electronic]. 2017 Oct; 198(4): 817-23. PMID: 28487100, PII: S0022-5347(17)64684-6, DOI: 10.1016/j.juro.2017.04.102, ISSN: 1527-3792.
Huang FW, Mosquera JM, Garofalo A, Oh C, Baco M, Amin-Mansour A, Rabasha B, Bahl S, Mullane SA, Robinson BD, Aldubayan S, Khani F, Karir B, Kim E, Chimene-Weiss J, Hofree M, Romanel A, Osborne JR, Kim JW, Azabdaftari G, Woloszynska-Read A, Sfanos K, De Marzo AM, Demichelis F, Gabriel S, Van Allen EM, Mesirov J, Tamayo P, Rubin MA, Powell IJ, Garraway LA. Exome Sequencing of African-American Prostate Cancer Reveals Loss-of-Function ERF Mutations. Cancer Discov [print-electronic]. 2017 Sep; 7(9): 973-83. PMID: 28515055, PMCID: PMC5836784, PII: 2159-8290.CD-16-0960, DOI: 10.1158/2159-8290.CD-16-0960, ISSN: 2159-8290.
Teo MY, Bambury RM, Zabor EC, Jordan E, Al-Ahmadie H, Boyd ME, Bouvier N, Mullane SA, Cha EK, Roper N, Ostrovnaya I, Hyman DM, Bochner BH, Arcila ME, Solit DB, Berger MF, Bajorin DF, Bellmunt J, Iyer G, Rosenberg JE. DNA Damage Response and Repair Gene Alterations Are Associated with Improved Survival in Patients with Platinum-Treated Advanced Urothelial Carcinoma. Clin Cancer Res [print-electronic]. 2017 Jul 7/15/2017; 23(14): 3610-8. PMID: 28137924, PMCID: PMC5511570, PII: 1078-0432.CCR-16-2520, DOI: 10.1158/1078-0432.CCR-16-2520, ISSN: 1557-3265.
Han GC, Hwang J, Wankowicz SAM, Zhang Z, Liu D, Cibulskis C, Gaviola GC, Ghazikhanian V, McKay RR, Bubley GJ, Carter SL, Balk SP, Hahn WC, Taplin ME, Van Allen EM. Genomic Resistance Patterns to Second-Generation Androgen Blockade in Paired Tumor Biopsies of Metastatic Castration-Resistant Prostate Cancer. JCO Precis Oncol. 2017; 1: PMID: 32913968, PMCID: PMC7446377, PII: 1700140, DOI: 10.1200/PO.17.00140, ISSN: 2473-4284.
Orsola A, Mullane SA, Bellmunt J. Letter to the Editor, Re: van der Heijden AG, Mengual L, Lozano JJ, Ingelmo-Torres M, Ribal MJ, Fernández PL, Oosterwijk E, Schalken JA, Alcaraz A, Witjes JA. A five-gene expression signature to predict progression in T1G3 bladder cancer. Eur J Cancer. 2016; 64:127-136 [letter]. Eur J Cancer [print-electronic]. 2016 Nov; 68: 196-7. PMID: 27806880, PII: S0959-8049(16)32448-0, DOI: 10.1016/j.ejca.2016.09.017, ISSN: 1879-0852.
Mullane SA, Bellmunt J. Cancer immunotherapy: new applications in urologic oncology. Curr Opin Urol. 2016 Nov; 26(6): 556-63. PMID: 27584023, DOI: 10.1097/MOU.0000000000000337, ISSN: 1473-6586.
Mullane SA, Bellmunt J. Re: John P. Sfakianos, Eugene K. Cha, Gopa Iyer, et al. Genomic Characterization of Upper Tract Urothelial Carcinoma. Eur Urol 2015;68:970-7 [letter]. Eur Urol [print-electronic]. 2016 Sep; 70(3): e71. PMID: 26852077, PII: S0302-2838(16)00138-X, DOI: 10.1016/j.eururo.2016.01.036, ISSN: 1873-7560.
Mullane SA, Werner L, Guancial EA, Lis RT, Stack EC, Loda M, Kantoff PW, Choueiri TK, Rosenberg J, Bellmunt J. Expression Levels of DNA Damage Repair Proteins Are Associated With Overall Survival in Platinum-Treated Advanced Urothelial Carcinoma. Clin Genitourin Cancer [print-electronic]. 2016 Aug; 14(4): 352-9. PMID: 26778300, PMCID: PMC5508512, PII: S1558-7673(15)00359-6, DOI: 10.1016/j.clgc.2015.12.029, ISSN: 1938-0682.
Bellmunt J, Zhou CW, Mullane SA, Werner L, Taplin ME, Fay AP, Choueiri TK, Orsola A, Takeda DY, Hahn WC, Kim J, Sonpavde G, Bowden M. Association of tumour microRNA profiling with outcomes in patients with advanced urothelial carcinoma receiving first-line platinum-based chemotherapy. Br J Cancer [print-electronic]. 2016 Jun 6/28/2016; 115(1): 12-9. PMID: 27351382, PMCID: PMC4931368, PII: bjc2016146, DOI: 10.1038/bjc.2016.146, ISSN: 1532-1827.
Mullane SA, Werner L, Rosenberg J, Signoretti S, Callea M, Choueiri TK, Freeman GJ, Bellmunt J. Correlation of Apobec Mrna Expression with overall Survival and pd-l1 Expression in Urothelial Carcinoma. Sci Rep. 2016 Jun 6/10/2016; 6: 27702. PMID: 27283319, PMCID: PMC4901342, PII: srep27702, DOI: 10.1038/srep27702, ISSN: 2045-2322.
Mullane SA, Van Allen EM. Precision medicine for advanced prostate cancer. Curr Opin Urol. 2016 May; 26(3): 231-9. PMID: 26909474, PMCID: PMC4955574, DOI: 10.1097/MOU.0000000000000278, ISSN: 1473-6586.
Cole AP, Dalela D, Hanske J, Mullane SA, Choueiri TK, Meyer CP, Nguyen PL, Menon M, Kibel AS, Preston MA, Bellmunt J, Trinh QD. Temporal trends in receipt of adequate lymphadenectomy in bladder cancer 1988 to 2010. Urol Oncol [print-electronic]. 2015 Dec; 33(12): 504.e9-17-504.e5.04E17. PMID: 26320810, PII: S1078-1439(15)00358-0, DOI: 10.1016/j.urolonc.2015.07.015, ISSN: 1873-2496.
Bellmunt J, Werner L, Bamias A, Fay AP, Park RS, Riester M, Selvarajah S, Barletta JA, Berman DM, de Muga S, Salido M, Gallardo E, Rojo F, Guancial EA, Bambury R, Mullane SA, Choueiri TK, Loda M, Stack E, Rosenberg J. HER2 as a target in invasive urothelial carcinoma. Cancer Med [print-electronic]. 2015 Jun; 4(6): 844-52. PMID: 25720673, PMCID: PMC4472207, DOI: 10.1002/cam4.432, ISSN: 2045-7634.
Leow JJ, Fay AP, Mullane SA, Bellmunt J. Perioperative therapy for muscle invasive bladder cancer. Hematol Oncol Clin North Am. 2015 Apr; 29(2): 301-18, ix-ix. PMID: 25836936, PII: S0889-8588(14)00171-3, DOI: 10.1016/j.hoc.2014.11.002, ISSN: 1558-1977.
Bellmunt J, Mullane SA, Werner L, Fay AP, Callea M, Leow JJ, Taplin ME, Choueiri TK, Hodi FS, Freeman GJ, Signoretti S. Association of PD-L1 expression on tumor-infiltrating mononuclear cells and overall survival in patients with urothelial carcinoma. Ann Oncol [print-electronic]. 2015 Apr; 26(4): 812-7. PMID: 25600565, PII: S0923-7534(19)31465-6, DOI: 10.1093/annonc/mdv009, ISSN: 1569-8041.
Orsola A, Werner L, de Torres I, Martin-Doyle W, Raventos CX, Lozano F, Mullane SA, Leow JJ, Barletta JA, Bellmunt J, Morote J. Reexamining treatment of high-grade T1 bladder cancer according to depth of lamina propria invasion: a prospective trial of 200 patients. Br J Cancer [print-electronic]. 2015 Feb 2/3/2015; 112(3): 468-74. PMID: 25535728, PMCID: PMC4453654, PII: bjc2014633, DOI: 10.1038/bjc.2014.633, ISSN: 1532-1827.
Bellmunt J, Werner L, Leow JJ, Mullane SA, Fay AP, Riester M, Van Hummelen P, Taplin ME, Choueiri TK, Van Allen E, Rosenberg J. Somatic Copy Number Abnormalities and Mutations in PI3K/AKT/mTOR Pathway Have Prognostic Significance for Overall Survival in Platinum Treated Locally Advanced or Metastatic Urothelial Tumors. PLoS One. 2015; 10(6): e0124711. PMID: 26039708, PMCID: PMC4454515, PII: PONE-D-14-45927, DOI: 10.1371/journal.pone.0124711, ISSN: 1932-6203.
Wankowicz SA, Ravikumar A, Sharma S, Riley B, Raju A, Hogan DW, Flowers J, van den Bedem H, Keedy DA, Fraser JS. Automated multiconformer model building for X-ray crystallography and cryo-EM. Elife. 2024 Jun 6/21/2024; 12: PMID: 38904665, PMCID: PMC11192534, PII: 90606, DOI: 10.7554/eLife.90606, ISSN: 2050-084X.
Díaz RE, Wankowicz SA. Ten recommendations for hosting a Diversity, Equity, Inclusion, and Justice (DEIJ) journal club. PLoS Comput Biol. 2024 Jun; 20(6): e1012166. PMID: 38843155, PMCID: PMC11156311, PII: PCOMPBIOL-D-23-01970, DOI: 10.1371/journal.pcbi.1012166, ISSN: 1553-7358.
Wankowicz SA, Ravikumar A, Sharma S, Riley BT, Raju A, Flowers J, Hogan D, van den Bedem H, Keedy DA, Fraser JS. Uncovering Protein Ensembles: Automated Multiconformer Model Building for X-ray Crystallography and Cryo-EM. BioRxiv. 2024 Apr 4/30/2024; PMID: 37425870, PMCID: PMC10327213, PII: 2023.06.28.546963, DOI: 10.1101/2023.06.28.546963, ISSN: 2692-8205.
Du S, Wankowicz SA, Yabukarski F, Doukov T, Herschlag D, Fraser JS. Refinement of Multiconformer Ensemble Models from Multi-temperature X-ray Diffraction Data. BioRxiv. 2023 May 5/5/2023; PMID: 37205593, PMCID: PMC10187334, PII: 2023.05.05.539620, DOI: 10.1101/2023.05.05.539620, ISSN: 2692-8205.
Du S, Wankowicz SA, Yabukarski F, Doukov T, Herschlag D, Fraser JS. Refinement of multiconformer ensemble models from multi-temperature X-ray diffraction data. Methods Enzymol [print-electronic]. 2023; 688: 223-54. PMID: 37748828, PMCID: PMC10637719, PII: S0076-6879(23)00214-8, DOI: 10.1016/bs.mie.2023.06.009, ISSN: 1557-7988.
Wankowicz SA, de Oliveira SH, Hogan DW, van den Bedem H, Fraser JS. Ligand binding remodels protein side-chain conformational heterogeneity. Elife. 2022 Mar 3/21/2022; 11: PMID: 35312477, PMCID: PMC9084896, PII: 74114, DOI: 10.7554/eLife.74114, ISSN: 2050-084X.
Tewari AK, Cheung ATM, Crowdis J, Conway JR, Camp SY, Wankowicz SA, Livitz DG, Park J, Lis RT, Bosma-Moody A, He MX, AlDubayan SH, Zhang Z, McKay RR, Leshchiner I, Brown M, Balk SP, Getz G, Taplin ME, Van Allen EM. Molecular features of exceptional response to neoadjuvant anti-androgen therapy in high-risk localized prostate cancer. Cell Rep. 2021 Sep 9/7/2021; 36(10): 109665. PMID: 34496240, PII: S2211-1247(21)01109-8, DOI: 10.1016/j.celrep.2021.109665, ISSN: 2211-1247.
Lawson CL, Kryshtafovych A, Adams PD, Afonine PV, Baker ML, Barad BA, Bond P, Burnley T, Cao R, Cheng J, Chojnowski G, Cowtan K, Dill KA, DiMaio F, Farrell DP, Fraser JS, Herzik MA, Hoh SW, Hou J, Hung LW, Igaev M, Joseph AP, Kihara D, Kumar D, Mittal S, Monastyrskyy B, Olek M, Palmer CM, Patwardhan A, Perez A, Pfab J, Pintilie GD, Richardson JS, Rosenthal PB, Sarkar D, Schäfer LU, Schmid MF, Schröder GF, Shekhar M, Si D, Singharoy A, Terashi G, Terwilliger TC, Vaiana A, Wang L, Wang Z, Wankowicz SA, Williams CJ, Winn M, Wu T, Yu X, Zhang K, Berman HM, Chiu W. Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge. Nat Methods [print-electronic]. 2021 Feb; 18(2): 156-64. PMID: 33542514, PMCID: PMC7864804, PII: 10.1038/s41592-020-01051-w, DOI: 10.1038/s41592-020-01051-w, ISSN: 1548-7105.
Riley BT, Wankowicz SA, de Oliveira SHP, van Zundert GCP, Hogan DW, Fraser JS, Keedy DA, van den Bedem H. QFit 3: Protein and ligand multiconformer modeling for X-ray crystallographic and single-particle cryo-EM density maps. Protein Sci [print-electronic]. 2021 Jan; 30(1): 270-85. PMID: 33210433, PMCID: PMC7737783, DOI: 10.1002/pro.4001, ISSN: 1469-896X.
Bellmunt J, Kim J, Reardon B, Perera-Bel J, Orsola A, Rodriguez-Vida A, Wankowicz SA, Bowden M, Barletta JA, Morote J, de Torres I, Juanpere N, Lloreta-Trull J, Hernandez S, Mouw KW, Taplin ME, Cejas P, Long HW, Van Allen EM, Getz G, Kwiatkowski DJ. Genomic Predictors of Good Outcome, Recurrence, or Progression in High-Grade T1 Non-Muscle-Invasive Bladder Cancer. Cancer Res [print-electronic]. 2020 Oct 10/15/2020; 80(20): 4476-86. PMID: 32868381, PMCID: PMC9361191, PII: 0008-5472.CAN-20-0977, DOI: 10.1158/0008-5472.CAN-20-0977, ISSN: 1538-7445.
Newberry RW, Arhar T, Costello J, Hartoularos GC, Maxwell AM, Naing ZZC, Pittman M, Reddy NR, Schwarz DMC, Wassarman DR, Wu TS, Barrero D, Caggiano C, Catching A, Cavazos TB, Estes LS, Faust B, Fink EA, Goldman MA, Gomez YK, Gordon MG, Gunsalus LM, Hoppe N, Jaime-Garza M, Johnson MC, Jones MG, Kung AF, Lopez KE, Lumpe J, Martyn C, McCarthy EE, Miller-Vedam LE, Navarro EJ, Palar A, Pellegrino J, Saylor W, Stephens CA, Strickland J, Torosyan H, Wankowicz SA, Wong DR, Wong G, Redding S, Chow ED, DeGrado WF, Kampmann M. Robust Sequence Determinants of a-Synuclein Toxicity in Yeast Implicate Membrane Binding. ACS Chem Biol [print-electronic]. 2020 Aug 8/21/2020; 15(8): 2137-53. PMID: 32786289, PMCID: PMC7442712, DOI: 10.1021/acschembio.0c00339, ISSN: 1554-8937.
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Meyer B, Roesch F, Vallet T, Mac Kain A, Miorin L, Moreno E, Naing ZZC, Zhou Y, Peng S, Shi Y, Zhang Z, Shen W, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Lyu J, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Rakesh R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Huang XP, Liu Y, Wankowicz SA, Bohn M, Safari M, Ugur FS, Koh C, Savar NS, Tran QD, Shengjuler D, Fletcher SJ, O'Neal MC, Cai Y, Chang JCJ, Broadhurst DJ, Klippsten S, Sharp PP, Wenzell NA, Kuzuoglu-Ozturk D, Wang HY, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Stroud RM, Frankel AD, Rosenberg OS, Verba KA, Agard DA, Ott M, Emerman M, Jura N, von Zastrow M, Verdin E, Ashworth A, Schwartz O, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor SN, Fraser JS, Gross JD, Sali A, Roth BL, Ruggero D, Taunton J, Kortemme T, Beltrao P, Vignuzzi M, García-Sastre A, Shokat KM, Shoichet BK, Krogan NJ. A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. Nature [print-electronic]. 2020 Jul; 583(7816): 459-68. PMID: 32353859, PMCID: PMC7431030, PII: 10.1038/s41586-020-2286-9, DOI: 10.1038/s41586-020-2286-9, ISSN: 1476-4687.
Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, O'Meara MJ, Guo JZ, Swaney DL, Tummino TA, Huettenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, Polacco BJ, Braberg H, Fabius JM, Eckhardt M, Soucheray M, Bennett MJ, Cakir M, McGregor MJ, Li Q, Naing ZZC, Zhou Y, Peng S, Kirby IT, Melnyk JE, Chorba JS, Lou K, Dai SA, Shen W, Shi Y, Zhang Z, Barrio-Hernandez I, Memon D, Hernandez-Armenta C, Mathy CJP, Perica T, Pilla KB, Ganesan SJ, Saltzberg DJ, Ramachandran R, Liu X, Rosenthal SB, Calviello L, Venkataramanan S, Liboy-Lugo J, Lin Y, Wankowicz SA, Bohn M, Sharp PP, Trenker R, Young JM, Cavero DA, Hiatt J, Roth TL, Rathore U, Subramanian A, Noack J, Hubert M, Roesch F, Vallet T, Meyer B, White KM, Miorin L, Rosenberg OS, Verba KA, Agard D, Ott M, Emerman M, Ruggero D, García-Sastre A, Jura N, von Zastrow M, Taunton J, Ashworth A, Schwartz O, Vignuzzi M, d'Enfert C, Mukherjee S, Jacobson M, Malik HS, Fujimori DG, Ideker T, Craik CS, Floor S, Fraser JS, Gross J, Sali A, Kortemme T, Beltrao P, Shokat K, Shoichet BK, Krogan NJ. A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. BioRxiv. 2020 Mar 3/27/2020; PMID: 32511329, PMCID: PMC7239059, PII: 2020.03.22.002386, DOI: 10.1101/2020.03.22.002386, ISSN: 2692-8205.
Kamran SC, Lennerz JK, Margolis CA, Liu D, Reardon B, Wankowicz SA, Van Seventer EE, Tracy A, Wo JY, Carter SL, Willers H, Corcoran RB, Hong TS, Van Allen EM. Integrative Molecular Characterization of Resistance to Neoadjuvant Chemoradiation in Rectal Cancer. Clin Cancer Res [print-electronic]. 2019 Sep 9/15/2019; 25(18): 5561-71. PMID: 31253631, PMCID: PMC6744983, PII: 1078-0432.CCR-19-0908, DOI: 10.1158/1078-0432.CCR-19-0908, ISSN: 1557-3265.
Gild P, Wankowicz SA, Sood A, von Landenberg N, Friedlander DF, Alanee S, Chun FKH, Fisch M, Menon M, Trinh QD, Bellmunt J, Abdollah F. Racial disparity in quality of care and overall survival among black vs. white patients with muscle-invasive bladder cancer treated with radical cystectomy: A national cancer database analysis. Urol Oncol [print-electronic]. 2018 Oct; 36(10): 469.e1-469.e11-469.e11. PMID: 30139659, PII: S1078-1439(18)30267-9, DOI: 10.1016/j.urolonc.2018.07.012, ISSN: 1873-2496.
Bellmunt J, Lalani AA, Jacobus S, Wankowicz SA, Polacek L, Takeda DY, Harshman LC, Wagle N, Moreno I, Lundgren K, Bossé D, Van Allen EM, Choueiri TK, Rosenberg JE. Everolimus and pazopanib (E/P) benefit genomically selected patients with metastatic urothelial carcinoma. Br J Cancer [print-electronic]. 2018 Sep; 119(6): 707-12. PMID: 30220708, PMCID: PMC6173710, PII: 10.1038/s41416-018-0261-0, DOI: 10.1038/s41416-018-0261-0, ISSN: 1532-1827.
Sonpavde G, Pond GR, Rosenberg JE, Choueiri TK, Bellmunt J, Regazzi AM, Mullane SA, Necchi A, Raggi D, Lee JL, Lee S, Simpson J, Derleth CL, Lin SW, Bajorin DF. Nomogram to Assess the Survival Benefit of New Salvage Agents for Metastatic Urothelial Carcinoma in the Era of Immunotherapy. Clin Genitourin Cancer [print-electronic]. 2018 Aug; 16(4): e961-e967-e967. PMID: 29706503, PMCID: PMC6697267, PII: S1558-7673(18)30089-2, DOI: 10.1016/j.clgc.2018.03.016, ISSN: 1938-0682.
Viswanathan SR, Ha G, Hoff AM, Wala JA, Carrot-Zhang J, Whelan CW, Haradhvala NJ, Freeman SS, Reed SC, Rhoades J, Polak P, Cipicchio M, Wankowicz SA, Wong A, Kamath T, Zhang Z, Gydush GJ, Rotem D, , Love JC, Getz G, Gabriel S, Zhang CZ, Dehm SM, Nelson PS, Van Allen EM, Choudhury AD, Adalsteinsson VA, Beroukhim R, Taplin ME, Meyerson M. Structural Alterations Driving Castration-Resistant Prostate Cancer Revealed by Linked-Read Genome Sequencing. Cell [print-electronic]. 2018 Jul 7/12/2018; 174(2): 433-447.e19-447.e19. PMID: 29909985, PMCID: PMC6046279, PII: S0092-8674(18)30648-2, DOI: 10.1016/j.cell.2018.05.036, ISSN: 1097-4172.
McKay RR, Bossé D, Xie W, Wankowicz SAM, Flaifel A, Brandao R, Lalani AA, Martini DJ, Wei XX, Braun DA, Van Allen E, Castellano D, De Velasco G, Wells JC, Heng DY, Fay AP, Schutz FA, Hsu J, Pal SK, Lee JL, Hsieh JJ, Harshman LC, Signoretti S, Motzer RJ, Feldman D, Choueiri TK. The Clinical Activity of PD-1/PD-L1 Inhibitors in Metastatic Non-Clear Cell Renal Cell Carcinoma. Cancer Immunol Res [print-electronic]. 2018 Jul; 6(7): 758-65. PMID: 29748390, PMCID: PMC6712567, PII: 2326-6066.CIR-17-0475, DOI: 10.1158/2326-6066.CIR-17-0475, ISSN: 2326-6074.
Teo MY, Bambury RM, Zabor EC, Jordan E, Al-Ahmadie H, Boyd ME, Bouvier N, Mullane SA, Cha EK, Roper N, Ostrovnaya I, Hyman DM, Bochner BH, Arcila ME, Solit DB, Berger MF, Bajorin DF, Bellmunt J, Iyer G, Rosenberg JE. Commentary on "DNA damage response and repair gene alterations are associated with improved survival in patients with platinum-treated advanced urothelial carcinoma.". Urol Oncol [print-electronic]. 2018 Jul; 36(7): 345-6. PMID: 29859727, PII: S1078-1439(18)30163-7, DOI: 10.1016/j.urolonc.2018.05.011, ISSN: 1873-2496.
de Velasco G, Wankowicz SA, Madison R, Ali SM, Norton C, Duquette A, Ross JS, Bossé D, Lalani AA, Miller VA, Stephens PJ, Young L, Hakimi AA, Signoretti S, Pal SK, Choueiri TK. Targeted genomic landscape of metastases compared to primary tumours in clear cell metastatic renal cell carcinoma. Br J Cancer [print-electronic]. 2018 May; 118(9): 1238-42. PMID: 29674707, PMCID: PMC5943584, PII: 10.1038/s41416-018-0064-3, DOI: 10.1038/s41416-018-0064-3, ISSN: 1532-1827.
Armenia J, Wankowicz SAM, Liu D, Gao J, Kundra R, Reznik E, Chatila WK, Chakravarty D, Han GC, Coleman I, Montgomery B, Pritchard C, Morrissey C, Barbieri CE, Beltran H, Sboner A, Zafeiriou Z, Miranda S, Bielski CM, Penson AV, Tolonen C, Huang FW, Robinson D, Wu YM, Lonigro R, Garraway LA, Demichelis F, Kantoff PW, Taplin ME, Abida W, Taylor BS, Scher HI, Nelson PS, de Bono JS, Rubin MA, Sawyers CL, Chinnaiyan AM, , Schultz N, Van Allen EM. The long tail of oncogenic drivers in prostate cancer. Nat Genet [print-electronic]. 2018 May; 50(5): 645-51. PMID: 29610475, PMCID: PMC6107367, PII: 10.1038/s41588-018-0078-z, DOI: 10.1038/s41588-018-0078-z, ISSN: 1546-1718.
Sevillano E, Werner L, Bossé D, Lalani AA, Wankowicz SAM, de Velasco G, Farina M, Lundgren K, Choueiri TK, González Del Alba A, Bellmunt J. Upper Tract Urothelial Carcinomas: Prognostic Factors and Outcomes in Patients With Non-Lymph Node Distant Metastasis. Clin Genitourin Cancer [print-electronic]. 2017 Dec; 15(6): e1089-e1094-e1094. PMID: 28864222, PII: S1558-7673(17)30209-4, DOI: 10.1016/j.clgc.2017.07.012, ISSN: 1938-0682.
Vetterlein MW, Wankowicz SAM, Seisen T, Lander R, Löppenberg B, Chun FK, Menon M, Sun M, Barletta JA, Choueiri TK, Bellmunt J, Trinh QD, Preston MA. Neoadjuvant chemotherapy prior to radical cystectomy for muscle-invasive bladder cancer with variant histology. Cancer [print-electronic]. 2017 Nov 11/15/2017; 123(22): 4346-55. PMID: 28743155, DOI: 10.1002/cncr.30907, ISSN: 1097-0142.
Wankowicz SAM, Werner L, Orsola A, Novak J, Bowden M, Choueiri TK, de Torres I, Morote J, Freeman GJ, Signoretti S, Bellmunt J. Differential Expression of PD-L1 in High Grade T1 vs Muscle Invasive Bladder Carcinoma and its Prognostic Implications. J Urol [print-electronic]. 2017 Oct; 198(4): 817-23. PMID: 28487100, PII: S0022-5347(17)64684-6, DOI: 10.1016/j.juro.2017.04.102, ISSN: 1527-3792.
Huang FW, Mosquera JM, Garofalo A, Oh C, Baco M, Amin-Mansour A, Rabasha B, Bahl S, Mullane SA, Robinson BD, Aldubayan S, Khani F, Karir B, Kim E, Chimene-Weiss J, Hofree M, Romanel A, Osborne JR, Kim JW, Azabdaftari G, Woloszynska-Read A, Sfanos K, De Marzo AM, Demichelis F, Gabriel S, Van Allen EM, Mesirov J, Tamayo P, Rubin MA, Powell IJ, Garraway LA. Exome Sequencing of African-American Prostate Cancer Reveals Loss-of-Function ERF Mutations. Cancer Discov [print-electronic]. 2017 Sep; 7(9): 973-83. PMID: 28515055, PMCID: PMC5836784, PII: 2159-8290.CD-16-0960, DOI: 10.1158/2159-8290.CD-16-0960, ISSN: 2159-8290.
Teo MY, Bambury RM, Zabor EC, Jordan E, Al-Ahmadie H, Boyd ME, Bouvier N, Mullane SA, Cha EK, Roper N, Ostrovnaya I, Hyman DM, Bochner BH, Arcila ME, Solit DB, Berger MF, Bajorin DF, Bellmunt J, Iyer G, Rosenberg JE. DNA Damage Response and Repair Gene Alterations Are Associated with Improved Survival in Patients with Platinum-Treated Advanced Urothelial Carcinoma. Clin Cancer Res [print-electronic]. 2017 Jul 7/15/2017; 23(14): 3610-8. PMID: 28137924, PMCID: PMC5511570, PII: 1078-0432.CCR-16-2520, DOI: 10.1158/1078-0432.CCR-16-2520, ISSN: 1557-3265.
Han GC, Hwang J, Wankowicz SAM, Zhang Z, Liu D, Cibulskis C, Gaviola GC, Ghazikhanian V, McKay RR, Bubley GJ, Carter SL, Balk SP, Hahn WC, Taplin ME, Van Allen EM. Genomic Resistance Patterns to Second-Generation Androgen Blockade in Paired Tumor Biopsies of Metastatic Castration-Resistant Prostate Cancer. JCO Precis Oncol. 2017; 1: PMID: 32913968, PMCID: PMC7446377, PII: 1700140, DOI: 10.1200/PO.17.00140, ISSN: 2473-4284.
Orsola A, Mullane SA, Bellmunt J. Letter to the Editor, Re: van der Heijden AG, Mengual L, Lozano JJ, Ingelmo-Torres M, Ribal MJ, Fernández PL, Oosterwijk E, Schalken JA, Alcaraz A, Witjes JA. A five-gene expression signature to predict progression in T1G3 bladder cancer. Eur J Cancer. 2016; 64:127-136 [letter]. Eur J Cancer [print-electronic]. 2016 Nov; 68: 196-7. PMID: 27806880, PII: S0959-8049(16)32448-0, DOI: 10.1016/j.ejca.2016.09.017, ISSN: 1879-0852.
Mullane SA, Bellmunt J. Cancer immunotherapy: new applications in urologic oncology. Curr Opin Urol. 2016 Nov; 26(6): 556-63. PMID: 27584023, DOI: 10.1097/MOU.0000000000000337, ISSN: 1473-6586.
Mullane SA, Bellmunt J. Re: John P. Sfakianos, Eugene K. Cha, Gopa Iyer, et al. Genomic Characterization of Upper Tract Urothelial Carcinoma. Eur Urol 2015;68:970-7 [letter]. Eur Urol [print-electronic]. 2016 Sep; 70(3): e71. PMID: 26852077, PII: S0302-2838(16)00138-X, DOI: 10.1016/j.eururo.2016.01.036, ISSN: 1873-7560.
Mullane SA, Werner L, Guancial EA, Lis RT, Stack EC, Loda M, Kantoff PW, Choueiri TK, Rosenberg J, Bellmunt J. Expression Levels of DNA Damage Repair Proteins Are Associated With Overall Survival in Platinum-Treated Advanced Urothelial Carcinoma. Clin Genitourin Cancer [print-electronic]. 2016 Aug; 14(4): 352-9. PMID: 26778300, PMCID: PMC5508512, PII: S1558-7673(15)00359-6, DOI: 10.1016/j.clgc.2015.12.029, ISSN: 1938-0682.
Bellmunt J, Zhou CW, Mullane SA, Werner L, Taplin ME, Fay AP, Choueiri TK, Orsola A, Takeda DY, Hahn WC, Kim J, Sonpavde G, Bowden M. Association of tumour microRNA profiling with outcomes in patients with advanced urothelial carcinoma receiving first-line platinum-based chemotherapy. Br J Cancer [print-electronic]. 2016 Jun 6/28/2016; 115(1): 12-9. PMID: 27351382, PMCID: PMC4931368, PII: bjc2016146, DOI: 10.1038/bjc.2016.146, ISSN: 1532-1827.
Mullane SA, Werner L, Rosenberg J, Signoretti S, Callea M, Choueiri TK, Freeman GJ, Bellmunt J. Correlation of Apobec Mrna Expression with overall Survival and pd-l1 Expression in Urothelial Carcinoma. Sci Rep. 2016 Jun 6/10/2016; 6: 27702. PMID: 27283319, PMCID: PMC4901342, PII: srep27702, DOI: 10.1038/srep27702, ISSN: 2045-2322.
Mullane SA, Van Allen EM. Precision medicine for advanced prostate cancer. Curr Opin Urol. 2016 May; 26(3): 231-9. PMID: 26909474, PMCID: PMC4955574, DOI: 10.1097/MOU.0000000000000278, ISSN: 1473-6586.
Cole AP, Dalela D, Hanske J, Mullane SA, Choueiri TK, Meyer CP, Nguyen PL, Menon M, Kibel AS, Preston MA, Bellmunt J, Trinh QD. Temporal trends in receipt of adequate lymphadenectomy in bladder cancer 1988 to 2010. Urol Oncol [print-electronic]. 2015 Dec; 33(12): 504.e9-17-504.e5.04E17. PMID: 26320810, PII: S1078-1439(15)00358-0, DOI: 10.1016/j.urolonc.2015.07.015, ISSN: 1873-2496.
Bellmunt J, Werner L, Bamias A, Fay AP, Park RS, Riester M, Selvarajah S, Barletta JA, Berman DM, de Muga S, Salido M, Gallardo E, Rojo F, Guancial EA, Bambury R, Mullane SA, Choueiri TK, Loda M, Stack E, Rosenberg J. HER2 as a target in invasive urothelial carcinoma. Cancer Med [print-electronic]. 2015 Jun; 4(6): 844-52. PMID: 25720673, PMCID: PMC4472207, DOI: 10.1002/cam4.432, ISSN: 2045-7634.
Leow JJ, Fay AP, Mullane SA, Bellmunt J. Perioperative therapy for muscle invasive bladder cancer. Hematol Oncol Clin North Am. 2015 Apr; 29(2): 301-18, ix-ix. PMID: 25836936, PII: S0889-8588(14)00171-3, DOI: 10.1016/j.hoc.2014.11.002, ISSN: 1558-1977.
Bellmunt J, Mullane SA, Werner L, Fay AP, Callea M, Leow JJ, Taplin ME, Choueiri TK, Hodi FS, Freeman GJ, Signoretti S. Association of PD-L1 expression on tumor-infiltrating mononuclear cells and overall survival in patients with urothelial carcinoma. Ann Oncol [print-electronic]. 2015 Apr; 26(4): 812-7. PMID: 25600565, PII: S0923-7534(19)31465-6, DOI: 10.1093/annonc/mdv009, ISSN: 1569-8041.
Orsola A, Werner L, de Torres I, Martin-Doyle W, Raventos CX, Lozano F, Mullane SA, Leow JJ, Barletta JA, Bellmunt J, Morote J. Reexamining treatment of high-grade T1 bladder cancer according to depth of lamina propria invasion: a prospective trial of 200 patients. Br J Cancer [print-electronic]. 2015 Feb 2/3/2015; 112(3): 468-74. PMID: 25535728, PMCID: PMC4453654, PII: bjc2014633, DOI: 10.1038/bjc.2014.633, ISSN: 1532-1827.
Bellmunt J, Werner L, Leow JJ, Mullane SA, Fay AP, Riester M, Van Hummelen P, Taplin ME, Choueiri TK, Van Allen E, Rosenberg J. Somatic Copy Number Abnormalities and Mutations in PI3K/AKT/mTOR Pathway Have Prognostic Significance for Overall Survival in Platinum Treated Locally Advanced or Metastatic Urothelial Tumors. PLoS One. 2015; 10(6): e0124711. PMID: 26039708, PMCID: PMC4454515, PII: PONE-D-14-45927, DOI: 10.1371/journal.pone.0124711, ISSN: 1932-6203.