Search Results - "Wankowicz, Stephanie A"

The long tail of oncogenic drivers in prostate cancer by Armenia, Joshua, Wankowicz, Stephanie A. M., Liu, David, Gao, Jianjiong, Kundra, Ritika, Reznik, Ed, Chatila, Walid K., Chakravarty, Debyani, Han, G. Celine, Coleman, Ilsa, Montgomery, Bruce, Pritchard, Colin, Morrissey, Colm, Barbieri, Christopher E., Beltran, Himisha, Sboner, Andrea, Zafeiriou, Zafeiris, Miranda, Susana, Bielski, Craig M., Penson, Alexander V., Tolonen, Charlotte, Huang, Franklin W., Robinson, Dan, Wu, Yi Mi, Lonigro, Robert, Garraway, Levi A., Demichelis, Francesca, Kantoff, Philip W., Taplin, Mary-Ellen, Abida, Wassim, Taylor, Barry S., Scher, Howard I., Nelson, Peter S., de Bono, Johann S., Rubin, Mark A., Sawyers, Charles L., Chinnaiyan, Arul M., Schultz, Nikolaus, Van Allen, Eliezer M.

“…Comprehensive genomic characterization of prostate cancer has identified recurrent alterations in genes involved in androgen signaling, DNA repair, and PI3K…”
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Structural Alterations Driving Castration-Resistant Prostate Cancer Revealed by Linked-Read Genome Sequencing by Viswanathan, Srinivas R., Ha, Gavin, Hoff, Andreas M., Wala, Jeremiah A., Carrot-Zhang, Jian, Whelan, Christopher W., Haradhvala, Nicholas J., Freeman, Samuel S., Reed, Sarah C., Rhoades, Justin, Polak, Paz, Cipicchio, Michelle, Wankowicz, Stephanie A., Wong, Alicia, Kamath, Tushar, Zhang, Zhenwei, Gydush, Gregory J., Rotem, Denisse, Love, J. Christopher, Getz, Gad, Gabriel, Stacey, Zhang, Cheng-Zhong, Dehm, Scott M., Nelson, Peter S., Van Allen, Eliezer M., Choudhury, Atish D., Adalsteinsson, Viktor A., Beroukhim, Rameen, Taplin, Mary-Ellen, Meyerson, Matthew

“…Nearly all prostate cancer deaths are from metastatic castration-resistant prostate cancer (mCRPC), but there have been few whole-genome sequencing (WGS)…”
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Integrative Molecular Characterization of Resistance to Neoadjuvant Chemoradiation in Rectal Cancer by Kamran, Sophia C, Lennerz, Jochen K, Margolis, Claire A, Liu, David, Reardon, Brendan, Wankowicz, Stephanie A, Van Seventer, Emily E, Tracy, Adam, Wo, Jennifer Y, Carter, Scott L, Willers, Henning, Corcoran, Ryan B, Hong, Theodore S, Van Allen, Eliezer M

“…Molecular properties associated with complete response or acquired resistance to concurrent chemotherapy and radiotherapy (CRT) are incompletely characterized…”
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Ligand binding remodels protein side-chain conformational heterogeneity by Wankowicz, Stephanie A, de Oliveira, Saulo H, Hogan, Daniel W, van den Bedem, Henry, Fraser, James S

“…While protein conformational heterogeneity plays an important role in many aspects of biological function, including ligand binding, its impact has been…”
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Comprehensive encoding of conformational and compositional protein structural ensembles through the mmCIF data structure by Wankowicz, Stephanie A, Fraser, James S

“…In the folded state, biomolecules exchange between multiple conformational states crucial for their function. However, most structural models derived from…”
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Automated multiconformer model building for X-ray crystallography and cryo-EM by Wankowicz, Stephanie A, Ravikumar, Ashraya, Sharma, Shivani, Riley, Blake, Raju, Akshay, Hogan, Daniel W, Flowers, Jessica, van den Bedem, Henry, Keedy, Daniel A, Fraser, James S

“…In their folded state, biomolecules exchange between multiple conformational states that are crucial for their function. Traditional structural biology…”
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Publisher Correction: The long tail of oncogenic drivers in prostate cancer by Armenia, Joshua, Wankowicz, Stephanie A. M., Liu, David, Gao, Jianjiong, Kundra, Ritika, Reznik, Ed, Chatila, Walid K., Chakravarty, Debyani, Han, G. Celine, Coleman, Ilsa, Montgomery, Bruce, Pritchard, Colin, Morrissey, Colm, Barbieri, Christopher E., Beltran, Himisha, Sboner, Andrea, Zafeiriou, Zafeiris, Miranda, Susana, Bielski, Craig M., Penson, Alexander V., Tolonen, Charlotte, Huang, Franklin W., Robinson, Dan, Wu, Yi Mi, Lonigro, Robert, Garraway, Levi A., Demichelis, Francesca, Kantoff, Philip W., Taplin, Mary-Ellen, Abida, Wassim, Taylor, Barry S., Scher, Howard I., Nelson, Peter S., de Bono, Johann S., Rubin, Mark A., Sawyers, Charles L., Chinnaiyan, Arul M., Schultz, Nikolaus, Van Allen, Eliezer M.

“…An amendment to this paper has been published and can be accessed via a link at the top of the paper…”
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Ten recommendations for hosting a Diversity, Equity, Inclusion, and Justice (DEIJ) journal club by Díaz, Roberto Efraín, Wankowicz, Stephanie A

“…Despite advances and social progress, the exclusion of diverse groups in academia, especially science, technology, engineering, and mathematics (STEM) fields,…”
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Neoadjuvant chemotherapy prior to radical cystectomy for muscle‐invasive bladder cancer with variant histology by Vetterlein, Malte W., Wankowicz, Stephanie A. M., Seisen, Thomas, Lander, Richard, Löppenberg, Björn, Chun, Felix K.‐H., Menon, Mani, Sun, Maxine, Barletta, Justine A., Choueiri, Toni K., Bellmunt, Joaquim, Trinh, Quoc‐Dien, Preston, Mark A.

“…BACKGROUND Neoadjuvant chemotherapy in pure urothelial bladder cancer provides a significant survival benefit. However, to the authors' knowledge, it is…”
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Genomic Predictors of Good Outcome, Recurrence, or Progression in High-Grade T1 Non-Muscle-Invasive Bladder Cancer by Bellmunt, Joaquim, Kim, Jaegil, Reardon, Brendan, Perera-Bel, Júlia, Orsola, Anna, Rodriguez-Vida, Alejo, Wankowicz, Stephanie A, Bowden, Michaela, Barletta, Justine A, Morote, Juan, de Torres, Inés, Juanpere, Nuria, Lloreta-Trull, Josep, Hernandez, Silvia, Mouw, Kent W, Taplin, Mary-Ellen, Cejas, Paloma, Long, Henry W, Van Allen, Eliezer M, Getz, Gad, Kwiatkowski, David J

“…High-grade T1 (HGT1) bladder cancer is the highest risk subtype of non-muscle-invasive bladder cancer with unpredictable outcome and poorly understood risk…”
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Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge by Lawson, Catherine L., Kryshtafovych, Andriy, Adams, Paul D., Afonine, Pavel V., Baker, Matthew L., Barad, Benjamin A., Bond, Paul, Burnley, Tom, Cao, Renzhi, Cheng, Jianlin, Chojnowski, Grzegorz, Cowtan, Kevin, Dill, Ken A., DiMaio, Frank, Farrell, Daniel P., Fraser, James S., Herzik, Mark A., Hoh, Soon Wen, Hou, Jie, Hung, Li-Wei, Igaev, Maxim, Joseph, Agnel P., Kihara, Daisuke, Kumar, Dilip, Mittal, Sumit, Monastyrskyy, Bohdan, Olek, Mateusz, Palmer, Colin M., Patwardhan, Ardan, Perez, Alberto, Pfab, Jonas, Pintilie, Grigore D., Richardson, Jane S., Rosenthal, Peter B., Sarkar, Daipayan, Schäfer, Luisa U., Schmid, Michael F., Schröder, Gunnar F., Shekhar, Mrinal, Si, Dong, Singharoy, Abishek, Terashi, Genki, Terwilliger, Thomas C., Vaiana, Andrea, Wang, Liguo, Wang, Zhe, Wankowicz, Stephanie A., Williams, Christopher J., Winn, Martyn, Wu, Tianqi, Yu, Xiaodi, Zhang, Kaiming, Berman, Helen M., Chiu, Wah

“…This paper describes outcomes of the 2019 Cryo-EM Model Challenge. The goals were to (1) assess the quality of models that can be produced from cryogenic…”
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qFit 3: Protein and ligand multiconformer modeling for X‐ray crystallographic and single‐particle cryo‐EM density maps by Riley, Blake T., Wankowicz, Stephanie A., Oliveira, Saulo H. P., Zundert, Gydo C. P., Hogan, Daniel W., Fraser, James S., Keedy, Daniel A., Bedem, Henry

“…New X‐ray crystallography and cryo‐electron microscopy (cryo‐EM) approaches yield vast amounts of structural data from dynamic proteins and their complexes…”
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Everolimus and pazopanib (E/P) benefit genomically selected patients with metastatic urothelial carcinoma by Bellmunt, Joaquim, Lalani, Aly-Khan A., Jacobus, Sussana, Wankowicz, Stephanie A., Polacek, Laura, Takeda, David Y., Harshman, Lauren C., Wagle, Nikhil, Moreno, Irene, Lundgren, Kevin, Bossé, Dominick, Van Allen, Eliezer M., Choueiri, Toni K., Rosenberg, Jonathan E.

“…Background Metastatic urothelial carcinoma (mUC) is a genomically diverse disease with known alterations in the mTOR pathway and tyrosine kinases including…”
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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 by Gild, Philipp, Wankowicz, Stephanie A., Sood, Akshay, von Landenberg, Nicolas, Friedlander, David F., Alanee, Shaheen, Chun, Felix K.H., Fisch, Margit, Menon, Mani, Trinh, Quoc-Dien, Bellmunt, Joaquim, Abdollah, Firas

“…•Quality of care was lower for Black patients in most care measures.•Notably, utilization of neoadjuvant chemotherapy for advanced disease stages was more…”
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The Clinical Activity of PD-1/PD-L1 Inhibitors in Metastatic Non-Clear Cell Renal Cell Carcinoma by McKay, Rana R, Bossé, Dominick, Xie, Wanling, Wankowicz, Stephanie A M, Flaifel, Abdallah, Brandao, Raphael, Lalani, Aly-Khan A, Martini, Dylan J, Wei, Xiao X, Braun, David A, Van Allen, Eliezer, Castellano, Daniel, De Velasco, Guillermo, Wells, J Connor, Heng, Daniel Y, Fay, Andre P, Schutz, Fabio A, Hsu, JoAnn, Pal, Sumanta K, Lee, Jae Lyun, Hsieh, James J, Harshman, Lauren C, Signoretti, Sabina, Motzer, Robert J, Feldman, Darren, Choueiri, Toni K

“…Programmed death 1 (PD-1) and PD ligand 1 (PD-L1) inhibitors have shown activity in metastatic clear cell renal cell carcinoma (ccRCC). Data on the activity of…”
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Molecular features of exceptional response to neoadjuvant anti-androgen therapy in high-risk localized prostate cancer by Tewari, Alok K., Cheung, Alexander T.M., Crowdis, Jett, Conway, Jake R., Camp, Sabrina Y., Wankowicz, Stephanie A., Livitz, Dimitri G., Park, Jihye, Lis, Rosina T., Bosma-Moody, Alice, He, Meng Xiao, AlDubayan, Saud H., Zhang, Zhenwei, McKay, Rana R., Leshchiner, Ignaty, Brown, Myles, Balk, Steven P., Getz, Gad, Taplin, Mary-Ellen, Van Allen, Eliezer M.

“…High-risk localized prostate cancer (HRLPC) is associated with a substantial risk of recurrence and disease mortality. Recent clinical trials have shown that…”
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Targeted genomic landscape of metastases compared to primary tumours in clear cell metastatic renal cell carcinoma by de Velasco, Guillermo, Wankowicz, Stephanie A., Madison, Russell, Ali, Siraj M., Norton, Craig, Duquette, Audrey, Ross, Jeffrey S., Bossé, Dominick, Lalani, Aly-Khan A., Miller, Vincent A., Stephens, Philip J., Young, Lauren, Hakimi, A. Ari, Signoretti, Sabina, Pal, Sumanta K., Choueiri, Toni K.

“…Background The genomic landscape of primary clear cell renal cell carcinoma (ccRCC) has been well described. However, little is known about cohort genomic…”
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Differential Expression Of Pd-L1 In High Grade T1 Vs Muscle Invasive Bladder Carcinoma And Its Prognostic Implications by Wankowicz, Stephanie A.M, Werner, Lillian, Orsola, Anna, Novak, Jesse, Bowden, Michaela, Choueiri, Toni K, de Torres, Inés, Morote, Juan, Freeman, Gordon J, Signoretti, Sabina, Bellmunt, Joaquim

“…Abstract Purpose PD-1 ligand (PD-L1) is expressed on both tumor cells (TCs) and tumor immune cell infiltrates (TIMC). In metastatic bladder cancer, increased…”
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Robust Sequence Determinants of α‑Synuclein Toxicity in Yeast Implicate Membrane Binding by Newberry, Robert W, Arhar, Taylor, Costello, Jean, Hartoularos, George C, Maxwell, Alison M, Naing, Zun Zar Chi, Pittman, Maureen, Reddy, Nishith R, Schwarz, Daniel M. C, Wassarman, Douglas R, Wu, Taia S, Barrero, Daniel, Caggiano, Christa, Catching, Adam, Cavazos, Taylor B, Estes, Laurel S, Faust, Bryan, Fink, Elissa A, Goldman, Miriam A, Gomez, Yessica K, Gordon, M. Grace, Gunsalus, Laura M, Hoppe, Nick, Jaime-Garza, Maru, Johnson, Matthew C, Jones, Matthew G, Kung, Andrew F, Lopez, Kyle E, Lumpe, Jared, Martyn, Calla, McCarthy, Elizabeth E, Miller-Vedam, Lakshmi E, Navarro, Erik J, Palar, Aji, Pellegrino, Jenna, Saylor, Wren, Stephens, Christina A, Strickland, Jack, Torosyan, Hayarpi, Wankowicz, Stephanie A, Wong, Daniel R, Wong, Garrett, Redding, Sy, Chow, Eric D, DeGrado, William F, Kampmann, Martin

“…Protein conformations are shaped by cellular environments, but how environmental changes alter the conformational landscapes of specific proteins in vivo…”
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Refinement of multiconformer ensemble models from multi-temperature X-ray diffraction data by Du, Siyuan, Wankowicz, Stephanie A, Yabukarski, Filip, Doukov, Tzanko, Herschlag, Daniel, Fraser, James S

“…Conformational ensembles underlie all protein functions. Thus, acquiring atomic-level ensemble models that accurately represent conformational heterogeneity is…”
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