Researcher Profile

Researcher Profile

Vonn Walter, PhD

Vonn Walter, PhD

Assistant Professor, Department of Public Health Sciences
Division of Biostatistics and Bioinformatics
Assistant Professor, Department of Biochemistry and Molecular Biology
Scientific Program:Mechanisms of Carcinogenesis
vaw5094@psu.edu

Research Interests

Dr. Vonn Walter's primary research field is cancer genomics, particularly gene expression profiling, DNA copy number analysis and integrated analysis of multiple genomic data types. He is interested in all aspects of RNA sequencing data analysis, including pre-processing, normalization, differential expression analysis, unsupervised clustering, development of gene expression classifiers, pathway analysis, and network analysis. His PhD thesis led to the development of the DiNAMIC algorithm for assessing the statistical significance of recurrent genomic aberrations, such as regions of the genome where DNA copy number gains or losses are observed across multiple subjects. He also created the mVisAGe R package for computing and visualizing bivariate correlations that can be used to perform exploratory analyses for identifying regions of the genome where underling genomic aberrations affect the expression of regional genes.

Dr. Walter enjoys team science, and plays a variety of roles in ongoing collaborations with researchers at Penn State College of Medicine and elsewhere. He is a member of the Biostatistics/Bioinformatics Shared Resource of Penn State Cancer Institute.

  • Neoplasms
  • Mutation
  • DNA
  • Genes
  • Gene Expression
  • Urinary Bladder Neoplasms
  • Survival
  • Squamous Cell Carcinoma
  • Genome
  • Lung Neoplasms
  • Lung
  • Thyroid Neoplasms

Recent Publications

2020

Coates, MD, Soriano, C, Dalessio, S, Stuart, A, Walter, V, Koltun, W, Bernasko, N, Tinsley, A, Clarke, K & Williams, ED 2020, 'Gastrointestinal hypoalgesia in inflammatory bowel disease', Annals of Gastroenterology, vol. 33, no. 1, pp. 45-52. https://doi.org/10.20524/aog.2019.0442
Yoast, RE, Emrich, SM, Zhang, X, Xin, P, Johnson, MT, Fike, AJ, Walter, V, Hempel, N, Yule, DI, Sneyd, J, Gill, DL & Trebak, M 2020, 'The native ORAI channel trio underlies the diversity of Ca2+ signaling events', Nature communications, vol. 11, no. 1. https://doi.org/10.1038/s41467-020-16232-6

2019

Buckwalter, JM, Chan, W, Shuman, L, Wildermuth, T, Ellis-Mohl, J, Walter, V, Warrick, JI, Wu, XR, Kaag, M, Raman, JD & Degraff, DJ 2019, 'Characterization of histone deacetylase expression within in vitro and in vivo bladder cancer model systems', International journal of molecular sciences, vol. 20, no. 10, 2599. https://doi.org/10.3390/ijms20102599
McDonald, AC, Vira, M, Walter, V, Shen, J, Raman, JD, Sanda, MG, Patil, D & Taioli, E 2019, 'Circulating microRNAs in plasma among men with low-grade and high-grade prostate cancer at prostate biopsy', Prostate, vol. 79, no. 9, pp. 961-968. https://doi.org/10.1002/pros.23803
Zaorsky, NG, Zhang, Y, Walter, V, Tchelebi, LT, Chinchilli, VM & Gusani, NJ 2019, 'Clinical trial accrual at initial course of therapy for cancer and its impact on survival', JNCCN Journal of the National Comprehensive Cancer Network, vol. 17, no. 11, pp. 1309-1316. https://doi.org/10.6004/jnccn.2019.7321
Krawiec, C, Walter, V & Myers, AK 2019, 'Effect of student-directed solicitation of evaluation forms on the timeliness of completion by preceptors in the United States', Journal of educational evaluation for health professions, vol. 16. https://doi.org/10.3352/jeehp.2019.16.32
Osei-Amponsa, V, Buckwalter, JM, Shuman, L, Zheng, Z, Yamashita, H, Walter, V, Wildermuth, T, Ellis-Mohl, J, Liu, C, Warrick, JI, Shantz, LM, Feehan, RP, Al-Ahmadie, H, Mendelsohn, C, Raman, JD, Kaestner, KH, Wu, XR & DeGraff, DJ 2020, 'Hypermethylation of FOXA1 and allelic loss of PTEN drive squamous differentiation and promote heterogeneity in bladder cancer', Oncogene, vol. 39, no. 6, pp. 1302-1317. https://doi.org/10.1038/s41388-019-1063-4
Lee, SY, Walter, V, Zhu, J, Salzberg, AC, Liu, DJ & Connor, JR 2019, 'Impact of HFE variants and sex in lung cancer', PloS one, vol. 14, no. 12, e0226821. https://doi.org/10.1371/journal.pone.0226821
Zaleski, M, Gogoj, A, Walter, V, Raman, JD, Kaag, M, Merrill, SB, Drabick, J, Joshi, M, Holder, S, DeGraff, DJ & Warrick, JI 2019, 'Mitotic activity in noninvasive papillary urothelial carcinoma: its value in predicting tumor recurrence and comparison with the contemporary 2-tier grading system', Human Pathology, vol. 84, pp. 275-282. https://doi.org/10.1016/j.humpath.2018.10.008
Pool, C, Walter, V, Bann, D, Goldenberg, D, Broach, J, Hennessy, M, Cottrill, E, Washburn, E, Williams, N, Crist, H, Imamura, Y & Warrick, JI 2019, 'Molecular characterization of tumors meeting diagnostic criteria for the non-invasive follicular thyroid neoplasm with papillary-like nuclear features (NIFTP)', Virchows Archiv, vol. 474, no. 3, pp. 341-351. https://doi.org/10.1007/s00428-018-02512-6
Coates, MD, Seth, N, Clarke, K, Abdul-Baki, H, Mahoney, N, Walter, V, Regueiro, MD, Ramos-Rivers, C, Koutroubakis, IE, Bielefeldt, K & Binion, DG 2019, 'Opioid Analgesics Do Not Improve Abdominal Pain or Quality of Life in Crohn’s Disease', Digestive Diseases and Sciences. https://doi.org/10.1007/s10620-019-05968-x
Yamashita, H, Kawasawa, YI, Shuman, L, Zheng, Z, Tran, T, Walter, V, Warrick, JI, Chen, G, Al-Ahmadie, H, Kaag, M, Wong, PK, Raman, JD & DeGraff, DJ 2019, 'Repression of transcription factor AP-2 alpha by PPARγ reveals a novel transcriptional circuit in basal-squamous bladder cancer', Oncogenesis, vol. 8, no. 12, 69. https://doi.org/10.1038/s41389-019-0178-3

2018

Labarge, B, Walter, V, Lengerich, EJ, Crist, H, Karamchandani, D, Williams, N, Goldenberg, D, Bann, DV & Warrick, JI 2018, 'Evidence of a positive association between malpractice climate and thyroid cancer incidence in the United States', PloS one, vol. 13, no. 7, e0199862. https://doi.org/10.1371/journal.pone.0199862
Lechner, M, Chakravarthy, AR, Walter, V, Masterson, L, Feber, A, Jay, A, Weinberger, PM, McIndoe, RA, Forde, CT, Chester, K, Kalavrezos, N, O'Flynn, P, Forster, M, Jones, TM, Vaz, FM, Hayes, DN & Fenton, TR 2018, 'Frequent HPV-independent p16/INK4A overexpression in head and neck cancer', Oral Oncology, vol. 83, pp. 32-37. https://doi.org/10.1016/j.oraloncology.2018.06.006
Worley, BL, Kim, YS, Mardini, J, Zaman, R, Leon, KE, Vallur, PG, Nduwumwami, A, Warrick, JI, Timmins, PF, Kesterson, JP, Phaëton, R, Lee, NY, Walter, V, Endres, L, Mythreye, K, Aird, KM & Hempel, N 2019, 'GPx3 supports ovarian cancer progression by manipulating the extracellular redox environment', Redox Biology, vol. 25, 101051. https://doi.org/10.1016/j.redox.2018.11.009
Zevallos, JP, Mazul, AL, Walter, V & Hayes, DN 2019, 'Gene Expression Subtype Predicts Nodal Metastasis and Survival in Human Papillomavirus–Negative Head and Neck Cancer', Laryngoscope, vol. 129, no. 1, pp. 154-161. https://doi.org/10.1002/lary.27340
The Cancer Genome Atlas Research Network 2018, 'Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas', Cell Reports, vol. 23, no. 1, pp. 194-212.e6. https://doi.org/10.1016/j.celrep.2018.03.063
Gonzalez-Lopez, E, Kawasawa, YI, Walter, V, Zhang, L, Koltun, WA, Huang, X, Vrana, KE & Coates, MD 2018, 'Homozygosity for the SCN10A polymorphism rs6795970 is associated with hypoalgesic inflammatory bowel disease phenotype', Frontiers in Medicine, vol. 5, no. NOV, 324. https://doi.org/10.3389/fmed.2018.00324
George, J, Walter, V, Peifer, M, Alexandrov, LB, Seidel, D, Leenders, F, Maas, L, Müller, C, Dahmen, I, Delhomme, TM, Ardin, M, Leblay, N, Byrnes, G, Sun, R, De Reynies, A, McLeer-Florin, A, Bosco, G, Malchers, F, Menon, R, Altmüller, J, Becker, C, Nürnberg, P, Achter, V, Lang, U, Schneider, PM, Bogus, M, Soloway, MG, Wilkerson, MD, Cun, Y, McKay, JD, Moro-Sibilot, D, Brambilla, CG, Lantuejoul, S, Lemaitre, N, Soltermann, A, Weder, W, Tischler, V, Brustugun, OT, Lund-Iversen, M, Helland, Å, Solberg, S, Ansén, S, Wright, G, Solomon, B, Roz, L, Pastorino, U, Petersen, I, Clement, JH, Sänger, J, Wolf, J, Vingron, M, Zander, T, Perner, S, Travis, WD, Haas, SA, Olivier, M, Foll, M, Büttner, R, Hayes, DN, Brambilla, E, Fernandez-Cuesta, L & Thomas, RK 2018, 'Integrative genomic profiling of large-cell neuroendocrine carcinomas reveals distinct subtypes of high-grade neuroendocrine lung tumors', Nature communications, vol. 9, no. 1, 1048. https://doi.org/10.1038/s41467-018-03099-x
Warrick, JI, Sjödahl, G, Kaag, M, Raman, JD, Merrill, S, Shuman, L, Chen, G, Walter, V & DeGraff, DJ 2019, 'Intratumoral Heterogeneity of Bladder Cancer by Molecular Subtypes and Histologic Variants [Figure presented]', European Urology, vol. 75, no. 1, pp. 18-22. https://doi.org/10.1016/j.eururo.2018.09.003
Walter, V, Du, Y, Danilova, L, Hayward, MC & Hayes, DN 2018, 'MVisAGe identifies concordant and discordant genomic alterations of driver genes in squamous tumors', Cancer Research, vol. 78, no. 12, pp. 3375-3385. https://doi.org/10.1158/0008-5472.CAN-17-3464
The Cancer Genome Atlas Network 2018, 'The Integrated Genomic Landscape of Thymic Epithelial Tumors', Cancer Cell, vol. 33, no. 2, pp. 244-258.e10. https://doi.org/10.1016/j.ccell.2018.01.003

2017

Goldenberg, D, Russo, M, Houser, K, Crist, H, Derr, JB, Walter, V, Warrick, JI, Sheldon, KE, Broach, J & Bann, DV 2017, 'Altered molecular profile in thyroid cancers from patients affected by the Three Mile Island nuclear accident', Laryngoscope, vol. 127, pp. S1-S9. https://doi.org/10.1002/lary.26687
Fu, J, Sen, R, Masica, DL, Karchin, R, Pardoll, D, Walter, V, Hayes, DN, Chung, CH & Kim, YJ 2017, 'Autologous reconstitution of human cancer and immune system in vivo', Oncotarget, vol. 8, no. 2, pp. 2053-2068. https://doi.org/10.18632/oncotarget.14026
Fishbein, L, Leshchiner, I, Walter, V, Danilova, L, Robertson, AG, Johnson, AR, Lichtenberg, TM, Murray, BA, Ghayee, HK, Else, T, Ling, S, Jefferys, SR, de Cubas, AA, Wenz, B, Korpershoek, E, Amelio, AL, Makowski, L, Rathmell, WK, Gimenez-Roqueplo, AP, Giordano, TJ, Asa, SL, Tischler, AS, Akbani, R, Ally, A, Amar, L, Arachchi, H, Auchus, RJ, Auman, JT, Baertsch, R, Balasundaram, M, Balu, S, Bartsch, DK, Baudin, E, Bauer, T, Beaver, A, Benz, C, Beroukhim, R, Beuschlein, F, Bodenheimer, T, Boice, L, Bowen, J, Bowlby, R, Brooks, D, Carlsen, R, Carter, S, Cassol, CA, Cherniack, AD, Chin, L, Cho, J, Chuah, E, Chudamani, S, Cope, L, Crain, D, Curley, E, de Krijger, RR, Demchok, JA, Deutschbein, T, Dhalla, N, Dimmock, D, Dinjens, WNM, Eng, C, Eschbacher, J, Fassnacht, M, Felau, I, Feldman, M, Ferguson, ML, Fiddes, I, Frazer, S, Gabriel, SB, Gardner, J, Gastier-Foster, JM, Gehlenborg, N, Gerken, M, Getz, G, Geurts, J, Goldman, M, Graim, K, Gupta, M, Haan, D, Hahner, S, Hantel, C, Haussler, D, Hayes, DN, Heiman, DI, Hoadley, KA, Holt, RA, Hoyle, AP, Huang, M, Hunt, B, Hutter, CM, Jones, SJM, Jones, CD, Kasaian, K, Kebebew, E, Kim, J, Kimes, P, Knijnenburg, T, Lander, E, Lawrence, MS, Lechan, R, Lee, D, Leraas, KM, Lerario, A, Lin, P, Liu, J, LiVolsi, VA, Lolla, L, Lotan, Y, Lu, Y, Ma, Y, Maison, N, Mallery, D, Mannelli, M, Marquard, J, Marra, MA, Matthew, T, Mayo, M, Méatchi, T, Meng, S, Merino, MJ, Mete, O, Meyerson, M, Mieczkowski, PA, Mills, GB, Moore, RA, Morozova, O, Morris, S, Mose, LE, Mungall, AJ, Naresh, R, Nathanson, KL, Newton, Y, Ng, S, Ni, Y, Noble, MS, Nwariaku, F, Pacak, K, Parker, JS, Paul, E, Penny, R, Perou, CM, Perou, AH, Pihl, T, Powers, J, Rabaglia, J, Radenbaugh, A, Ramirez, NC, Rao, A, Riester, A, Roach, J, Sadeghi, S, Saksena, G, Salama, S, Saller, C, Sandusky, G, Sbiera, S, Schein, JE, Schumacher, SE, Shelton, C, Shelton, T, Sheth, M, Shi, Y, Shih, J, Shmulevich, I, Simons, JV, Sipahimalani, P, Skelly, T, Sofia, HJ, Sokolov, A, Soloway, MG, Sougnez, C, Stuart, J, Sun, C, Swatloski, T, Tam, A, Tan, D, Tarnuzzer, R, Tarvin, K, Thiessen, N, Thorne, LB, Timmers, HJ, Tse, K, Uzunangelov, V, van Berkel, A, Veluvolu, U, Vicha, A, Voet, D, Waldmann, J, Wan, Y, Wang, Z, Wang, TS, Weaver, J, Weinstein, JN, Weismann, D, Wilkerson, MD, Wise, L, Wong, T, Wong, C, Wu, Y, Yang, L, Zelinka, T, Zenklusen, JC, Zhang, JJ, Zhang, W, Zhu, J, Zinzindohoué, F & Zmuda, E 2017, 'Comprehensive Molecular Characterization of Pheochromocytoma and Paraganglioma', Cancer Cell, vol. 31, no. 2, pp. 181-193. https://doi.org/10.1016/j.ccell.2017.01.001
Gezgin, G, Dogrusöz, M, van Essen, TH, Kroes, WGM, Luyten, GPM, van der Velden, PA, Walter, V, Verdijk, RM, van Hall, T, van der Burg, SH & Jager, MJ 2017, 'Genetic evolution of uveal melanoma guides the development of an inflammatory microenvironment', Cancer Immunology, Immunotherapy, vol. 66, no. 7, pp. 903-912. https://doi.org/10.1007/s00262-017-1991-1
Cherniack, AD, Shen, H, Walter, V, Stewart, C, Murray, BA, Bowlby, R, Hu, X, Ling, S, Soslow, RA, Broaddus, RR, Zuna, RE, Robertson, G, Laird, PW, Kucherlapati, R, Mills, GB, Akbani, R, Ally, A, Auman, JT, Balasundaram, M, Balu, S, Baylin, SB, Beroukhim, R, Bodenheimer, T, Bogomolniy, F, Boice, L, Bootwalla, MS, Bowen, J, Broaddus, R, Brooks, D, Carlsen, R, Cho, J, Chuah, E, Chudamani, S, Cibulskis, K, Cline, M, Dao, F, David, M, Demchok, JA, Dhalla, N, Dowdy, S, Felau, I, Ferguson, ML, Frazer, S, Frick, J, Gabriel, S, Gastier-Foster, JM, Gehlenborg, N, Gerken, M, Getz, G, Gupta, M, Haussler, D, Hayes, DN, Heiman, DI, Hess, J, Hoadley, KA, Hoffmann, R, Holt, RA, Hoyle, AP, Huang, M, Hutter, CM, Jefferys, SR, Jones, SJM, Jones, CD, Kanchi, RS, Kandoth, C, Kasaian, K, Kerr, S, Kim, J, Lai, PH, Lander, E, Lawrence, MS, Lee, D, Leraas, KM, Leshchiner, I, Levine, DA, Lichtenberg, TM, Lin, P, Liu, J, Liu, W, Liu, Y, Lolla, L, Lu, Y, Ma, Y, Maglinte, DT, Marra, MA, Mayo, M, Meng, S, Meyerson, M, Mieczkowski, PA, Moore, RA, Mose, LE, Mungall, AJ, Mungall, K, Naresh, R, Noble, MS, Olvera, N, Parker, JS, Perou, CM, Perou, AH, Pihl, T, Radenbaugh, AJ, Ramirez, NC, Rathmell, WK, Roach, J, Robertson, AG, Sadeghi, S, Saksena, G, Salvesen, HB, Schein, JE, Schumacher, SE, Sheth, M, Shi, Y, Shih, J, Simons, JV, Sipahimalani, P, Skelly, T, Sofia, HJ, Soloway, MG, Sougnez, C, Sun, C, Tam, A, Tan, D, Tarnuzzer, R, Thiessen, N, Thorne, LB, Tse, K, Tseng, J, Van Den Berg, DJ, Veluvolu, U, Verhaak, RGW, Voet, D, von Bismarck, A, Wan, Y, Wang, Z, Wang, C, Weinstein, JN, Weisenberger, DJ, Wilkerson, MD, Winterhoff, B, Wise, L, Wong, T, Wu, Y, Yang, L, Zenklusen, JC, Zhang, JJ, Zhang, H, Zhang, W, Zhu, JC, Zmuda, E & Zhang, J 2017, 'Integrated Molecular Characterization of Uterine Carcinosarcoma', Cancer Cell, vol. 31, no. 3, pp. 411-423. https://doi.org/10.1016/j.ccell.2017.02.010
Robertson, AG, Shih, J, Yau, C, Gibb, EA, Oba, J, Mungall, KL, Hess, JM, Uzunangelov, V, Walter, V, Danilova, L, Lichtenberg, TM, Kucherlapati, M, Kimes, PK, Tang, M, Penson, A, Babur, O, Akbani, R, Bristow, CA, Hoadley, KA, Iype, L, Chang, MT, Abdel-Rahman, MH, Ally, A, Auman, JT, Balasundaram, M, Balu, S, Benz, C, Beroukhim, R, Birol, I, Bodenheimer, T, Bowen, J, Bowlby, R, Brooks, D, Carlsen, R, Cebulla, CM, Cherniack, AD, Chin, L, Cho, J, Chuah, E, Chudamani, S, Cibulskis, C, Cibulskis, K, Cope, L, Coupland, SE, Defreitas, T, Demchok, JA, Desjardins, L, Dhalla, N, Esmaeli, B, Felau, I, Ferguson, ML, Frazer, S, Gabriel, SB, Gastier-Foster, JM, Gehlenborg, N, Gerken, M, Gershenwald, JE, Getz, G, Griewank, KG, Grimm, EA, Hayes, DN, Hegde, AM, Heiman, DI, Helsel, C, Hobensack, S, Holt, RA, Hoyle, AP, Hu, X, Hutter, CM, Jager, MJ, Jefferys, SR, Jones, CD, Jones, SJM, Kandoth, C, Kasaian, K, Kim, J, Kucherlapati, R, Lander, E, Lawrence, MS, Lazar, AJ, Lee, S, Leraas, KM, Lin, P, Liu, J, Liu, W, Lolla, L, Lu, Y, Ma, Y, Mahadeshwar, HS, Mariani, O, Marra, MA, Mayo, M, Meier, S, Meng, S, Meyerson, M, Mieczkowski, PA, Mills, GB, Moore, RA, Mose, LE, Mungall, AJ, Murray, BA, Naresh, R, Noble, MS, Pantazi, A, Parfenov, M, Park, PJ, Parker, JS, Perou, CM, Pihl, T, Pilarski, R, Protopopov, A, Radenbaugh, A, Rai, K, Ramirez, NC, Ren, X, Reynolds, SM, Roach, J, Roman-Roman, S, Roszik, J, Sadeghi, S, Saksena, G, Sastre, X, Schadendorf, D, Schein, JE, Schoenfield, L, Schumacher, SE, Seidman, J, Seth, S, Sethi, G, Sheth, M, Shi, Y, Shields, C, Shmulevich, I, Simons, JV, Singh, AD, Sipahimalani, P, Skelly, T, Sofia, H, Soloway, MG, Song, X, Stern, MH, Stuart, J, Sun, Q, Sun, H, Tam, A, Tan, D, Tang, J, Tarnuzzer, R, Taylor, BS, Thiessen, N, Thorsson, V, Tse, K, Veluvolu, U, Verhaak, RGW, Voet, D, Wan, Y, Wang, Z, Weinstein, JN, Wilkerson, MD, Williams, MD, Wise, L, Woodman, SE, Wong, T, Wu, Y, Yang, L, Yang, L, Zenklusen, JC, Zhang, J, Zhang, H & Zmuda, E 2017, 'Integrative Analysis Identifies Four Molecular and Clinical Subsets in Uveal Melanoma', Cancer Cell, vol. 32, no. 2, pp. 204-220.e15. https://doi.org/10.1016/j.ccell.2017.07.003
Bailey, ST, Smith, AM, Kardos, J, Wobker, SE, Wilson, HL, Krishnan, B, Saito, R, Lee, HJ, Zhang, J, Eaton, SC, Williams, LA, Manocha, U, Peters, DJ, Pan, X, Carroll, TJ, Felsher, DW, Walter, V, Zhang, Q, Parker, JS, Yeh, JJ, Moffitt, RA, Leung, JY & Kim, WY 2017, 'MYC activation cooperates with Vhl and Ink4a/Arf loss to induce clear cell renal cell carcinoma', Nature communications, vol. 8, 15770. https://doi.org/10.1038/ncomms15770
Doerr, F, George, J, Schmitt, A, Beleggia, F, Rehkämper, T, Hermann, S, Walter, V, Weber, JP, Thomas, RK, Wittersheim, M, Büttner, R, Persigehl, T & Christian Reinhardt, H 2017, 'Targeting a non-oncogene addiction to the ATR/CHK1 axis for the treatment of small cell lung cancer', Scientific reports, vol. 7, no. 1, 15511. https://doi.org/10.1038/s41598-017-15840-5

2016

Warrick, JI, Walter, V, Yamashita, H, Chung, E, Shuman, L, Amponsa, VO, Zheng, Z, Chan, W, Whitcomb, TL, Yue, F, Iyyanki, T, Kawasawa, YI, Kaag, M, Guo, W, Raman, JD, Park, JS & Degraff, DJ 2016, 'FOXA1, GATA3 and PPARIγ Cooperate to drive luminal subtype in bladder cancer: A molecular analysis of established human cell lines', Scientific reports, vol. 6, 38531. https://doi.org/10.1038/srep38531

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