Tonya Brunetti, PhD, MS, BA

Professional Titles

• Senior Computational Biologist
• Co-Director of Alpine HPC for Anschutz Medical Campus

Publications

• Fan X, Brunetti TM, Jackson K, Roop DR. Single-Cell Profiling Reveals Global Immune Responses during the Progression of Murine Epidermal Neoplasms. bioRxiv. 2024 Dec 25. PubMed PMID: 39763798
• Stumpf MM, Brunetti T, Davenport BJ, McCarthy MK, Morrison TE. Deep mutationally scanned (DMS) CHIKV E3/E2 virus library maps viral amino acid preferences and predicts viral escape mutants of neutralizing CHIKV antibodies. bioRxiv. 2024 Dec 4. PubMed PMID: 39677653
• Loh L, Carcy S, Krovi HS, Domenico J, Spengler A, Lin Y, Torres J, Prabakar RK, Palmer W, Norman PJ, Stone M, Brunetti T, Meyer HV, Gapin L. Unraveling the phenotypic states of human innate-like T cells: Comparative insights with conventional T cells and mouse models. Cell Rep. 2024 Sep 24;43(9):114705. PubMed PMID: 39264810
• Huynh TN, Toperzer J, Scherer A, Gumina A, Brunetti T, Mansour MK, Markovitz DM, Russo BC. Vimentin regulates mitochondrial ROS production and inflammatory responses of neutrophils. Front Immunol. 2024;15:1416275. PubMed PMID: 39139560
• Wu MH, Valenca-Pereira F, Cendali F, Giddings EL, Pham-Danis C, Yarnell MC, Novak AJ, Brunetti TM, Thompson SB, Henao-Mejia J, Flavell RA, D'Alessandro A, Kohler ME, Rincon M. Deleting the mitochondrial respiration negative regulator MCJ enhances the efficacy of CD8( ) T cell adoptive therapies in pre-clinical studies. Nat Commun. 2024 May 24;15(1):4444. PubMed PMID: 38789421
• Huynh TN, Toperzer J, Scherer A, Gumina A, Brunetti T, Mansour MK, Markovitz DM, Russo BC. Vimentin regulates mitochondrial ROS production and inflammatory responses of neutrophils. bioRxiv. 2024 Apr 15. PubMed PMID: 38659904
• Mukherjee N, Katsnelson E, Brunetti TM, Michel K, Couts KL, Lambert KA, Robinson WA, McCarter MD, Norris DA, Tobin RP, Shellman YG. MCL1 inhibition targets Myeloid Derived Suppressors Cells, promotes antitumor immunity and enhances the efficacy of immune checkpoint blockade. Cell Death Dis. 2024 Mar 8;15(3):198. PubMed PMID: 38459020
• Wiley LK, Shortt JA, Roberts ER, Lowery J, Kudron E, Lin M, Mayer D, Wilson M, Brunetti TM, Chavan S, Phang TL, Pozdeyev N, Lesny J, Wicks SJ, Moore ET, Morgenstern JL, Roff AN, Shalowitz EL, Stewart A, Williams C, Edelmann MN, Hull M, Patton JT, Axell L, Ku L, Lee YM, Jirikowic J, Tanaka A, Todd E, White S, Peterson B, Hearst E, Zane R, Greene CS, Mathias R, Coors M, Taylor M, Ghosh D, Kahn MG, Brooks IM, Aquilante CL, Kao D, Rafaels N, Crooks KR, Hess S, Barnes KC, Gignoux CR. Building a vertically integrated genomic learning health system: The biobank at the Colorado Center for Personalized Medicine. Am J Hum Genet. 2024 Jan 4;111(1):11-23. PubMed PMID: 38181729
• Pei S, Shelton IT, Gillen AE, Stevens BM, Gasparetto M, Wang Y, Liu L, Liu J, Brunetti TM, Engel K, Staggs S, Showers W, Sheth AI, Amaya ML, Minhajuddin M, Winters A, Patel SB, Tolison H, Krug AE, Young TN, Schowinsky J, McMahon CM, Smith CA, Pollyea DA, Jordan CT. A Novel Type of Monocytic Leukemia Stem Cell Revealed by the Clinical Use of Venetoclax-Based Therapy. Cancer Discov. 2023 Sep 6;13(9):2032-2049. PubMed PMID: 37358260
• Manzer HS, Brunetti T, Doran KS. Identification of a DNA-cytosine methyltransferase that impacts global transcription to promote group B streptococcal vaginal colonization. mBio. 2023 Oct 31;14(6):e0230623. [Epub ahead of print] PubMed PMID: 37905908
• Loh L, Carcy S, Krovi HS, Domenico J, Spengler A, Lin Y, Torres J, Palmer W, Norman PJ, Stone M, Brunetti T, Meyer HV, Gapin L. Unraveling the Phenotypic States of Human innate-like T Cells: Comparative Insights with Conventional T Cells and Mouse Models. bioRxiv. 2023 Dec 8. PubMed PMID: 38105962
• Burnet AM, Brunetti T, Rochford R. Hemin treatment drives viral reactivation and plasma cell differentiation of EBV latently infected B cells. PLoS Pathog. 2023 Aug;19(8):e1011561. PubMed PMID: 37639483
• Pei S, Shelton IT, Gillen AE, Stevens BM, Gasparetto M, Wang Y, Liu L, Liu J, Brunetti TM, Engel K, Staggs S, Showers W, Sheth AI, Amaya ML, Minhajuddin M, Winters A, Patel SB, Tolison H, Krug AE, Young TN, Schowinsky J, McMahon CM, Smith CA, Pollyea DA, Jordan CT. A Novel Type of Monocytic Leukemia Stem Cell Revealed by the Clinical Use of Venetoclax-Based Therapy. Cancer Discov. 2023 Sep 6;13(9):2032-2049. PubMed PMID: 37358260
• Krovi SH, Loh L, Spengler A, Brunetti T, Gapin L. Current insights in mouse iNKT and MAIT cell development using single cell transcriptomics data. Semin Immunol. 2022 Mar;60:101658. PubMed PMID: 36182863
• Camp FA, Brunetti TM, Williams MM, Christenson JL, Sreekanth V, Costello JC, Hay ZLZ, Kedl RM, Richer JK, Slansky JE. Antigens Expressed by Breast Cancer Cells Undergoing EMT Stimulate Cytotoxic CD8( ) T Cell Immunity. Cancers (Basel). 2022 Sep 9;14(18). PubMed PMID: 36139558
• Johnson RK, Brunetti T, Quinn K, Doenges K, Campbell M, Arehart C, Taub MA, Mathias RA, Reisdorph N, Barnes KC, Daya M. Discovering metabolite quantitative trait loci in asthma using an isolated population. J Allergy Clin Immunol. 2022 May;149(5):1807-1811.e16. PubMed PMID: 34780848
• de O da Silva LR, Oliveira P, Sardi S, Soares G, Bandeira AC, Costa RDS, Rafaels N, Campbell M, Brunetti T, Crooks K, Daya M, Teixeira MG, Carneiro VL, Barnes K, Figueiredo CA. Zika Virus Congenital Syndrome and MTOR gene variants: insights from a family of dizygotic twins. Heliyon. 2021 Apr;7(4):e06878. PubMed PMID: 33997407
• Johnson RK, Brunetti T, Quinn K, Doenges K, Campbell M, Arehart C, Taub MA, Mathias RA, Reisdorph N, Barnes KC, Daya M. Discovering metabolite quantitative trait loci in asthma using an isolated population. J Allergy Clin Immunol. 2021 Nov 12. [Epub ahead of print] PubMed PMID: 34780848
• Akenroye AT, Brunetti T, Romero K, Daya M, Kanchan K, Shankar G, Chavan S, Preethi Boorgula M, Ampleford EA, Fonseca HF, Hawkins GA, Pitangueira Teixeira HM, Campbell M, Rafaels N, Winters A, Bleecker ER, Cruz AA, Barreto ML, Meyers DA, Ortega VE, Figueiredo CA, Barnes KC, Checkley W, Hansel NN, Mathias RA. Genome-wide association study of asthma, total IgE, and lung function in a cohort of Peruvian children. J Allergy Clin Immunol. 2021 Dec;148(6):1493-1504. PubMed PMID: 33713768
• Brunetti,TM, Pozdeyev, N, Daya M, Barnes, KC, Rafaels, N, Gignoux, C. SAIGE-BRUSH: an efficient, user-friendly and low cost cloud implementation for genome-wide association studies, bioRxiv 2021.05.07.443171; doi: https://doi.org/10.1101/2021.05.07.443171
• Romero-Calvo I, Weber CR, Ray M, Brown M, Kirby K, Nandi RK, Long TM, Sparrow SM, Ugolkov A, Qiang W, Zhang Y, Brunetti T, Kindler H, Segal JP, Rzhetsky A, Mazar AP, Buschmann MM, Weichselbaum R, Roggin K, White KP. Human Organoids Share Structural and Genetic Features with Primary Pancreatic Adenocarcinoma Tumors. Mol Cancer Res. 2019 Jan;17(1):70-83. PubMed PMID: 30171177
• Meng Q, Wang K, Brunetti T, Xia Y, Jiao C, Dai R, Fitzgerald D, Thomas A, Jay L, Eckart H, Grennan K, Imamura-Kawasawa Y, Li M, Sestan N, White KP, Chen C, Liu C. The DGCR5 long noncoding RNA may regulate expression of several schizophrenia-related genes. Sci Transl Med. 2018 Dec 19;10(472). PubMed PMID: 30545965
• Chen C, Meng Q, Xia Y, Ding C, Wang L, Dai R, Cheng L, Gunaratne P, Gibbs RA, Min S, Coarfa C, Reid JG, Zhang C, Jiao C, Jiang Y, Giase G, Thomas A, Fitzgerald D, Brunetti T, Shieh A, Xia C, Wang Y, Wang Y, Badner JA, Gershon ES, White KP, Liu C. The transcription factor POU3F2 regulates a gene coexpression network in brain tissue from patients with psychiatric disorders. Sci Transl Med. 2018 Dec 19;10(472). PubMed PMID: 30545964
• Wang D, Liu S, Warrell J, Won H, Shi X, Navarro FCP, Clarke D, Gu M, Emani P, Yang YT, Xu M, Gandal MJ, Lou S, Zhang J, Park JJ, Yan C, Rhie SK, Manakongtreecheep K, Zhou H, Nathan A, Peters M, Mattei E, Fitzgerald D, Brunetti T, Moore J, Jiang Y, Girdhar K, Hoffman GE, Kalayci S, Gümüs ZH, Crawford GE, Roussos P, Akbarian S, Jaffe AE, White KP, Weng Z, Sestan N, Geschwind DH, Knowles JA, Gerstein MB. Comprehensive functional genomic resource and integrative model for the human brain. Science. 2018 Dec 14;362(6420). PubMed PMID: 30545857
• Brunetti TM, Fremin BJ, Cripps RM. Identification of singles bar as a direct transcriptional target of Drosophila Myocyte enhancer factor-2 and a regulator of adult myoblast fusion. Dev Biol. 2015 May 15;401(2):299-309. PubMed PMID: 25797154
• Bryantsev AL, Duong S, Brunetti TM, Chechenova MB, Lovato TL, Nelson C, Shaw E, Uhl JD, Gebelein B, Cripps RM. Extradenticle and homothorax control adult muscle fiber identity in Drosophila. Dev Cell. 2012 Sep 11;23(3):664-73. PubMed PMID: 22975331

Professional Memberships

• Association for Computing Machinery, Member
• SIGBio Association for Computing Machinery, Member
• SIGHPC Association for Computing Machinery, Member
• SIGACCESS Association for Computing Machinery, Member

Practice Locations