Education/CredentialsBA: Oberlin CollegePhD: Massachusetts Institute of TechnologyPostDoc: New York University, New York School of Medicine, Flatiron Institute (Simons Foundation) Contact Information Childrens Hospital Bldg R Office 513-636-4200 Email miraldey@ucmail.uc.edu Research InterestsSystems biology; computational immunology; immuno-engineering; network inference Peer Reviewed Publications Karwacz, K, Miraldi, ER, Pokrovskii, M, Madi, A, Yosef, N, Wortman, I, Chen, X, Watters, A, Carriero, N, Awasthi, A, Regev, A, Bonneau, R, Littman, DR, Kuchroo, VK. 2017. Critical role of IRF1 and BATF in preparing the chromatin landscape during Tr1 differentiation. Nature Immunology. , , Raviram, R, Rocha, PD, Mueller, CL, Miraldi, ER, Fu, Y, Swanzey, E, Badri, S, Proudhon, C, Snetkova, V, Bonneau, R, Skok, JA. 2016. A method to reproducibly identify genome-wide interactions captured by 4C-Seq experiments. PLoS Computational Biology. , 12 3, e1004780Kurtz, ZD*, Mueller, CL*, Miraldi, ER*, Littman, DR, Blaser, MJ, Bonneau, R. 2015. Sparse and compositionally robust inference of microbial ecological networks. PLoS Computational Biology. , 11 5, e1004226Miraldi, ER, Sharfi, H, Friedline, RH, Johnson, H, Zhang T, Lau, K, Ko, HJ, Curran, TG, Haigis, KM, Yaffe, YB, Bonneau, R, Lauffenburger, DA, Kahn, BB, Kim, J, Neel, BG, Saghatelian, A, White, FM. 2013. Molecular network analysis of protein-tyrosine phosphorylation and altered lipid metabolism in liver-specific PTP1b deletion mice. Integrative Biology. , 5 7, 940Huang, PH, Miraldi, ER, Xu, AM, Kundukulam, VA, Del Rosario, AM, Flynn, RA, Cavenee, WK, Furnari, FB, White, FM. 2010. Phosphotyrosine signaling analysis of site-specific mutations on EGFRvIII identifies determinants governing glioblastoma cell growth. Molecular BioSystems, 6 7, 1227
Peer Reviewed Publications Karwacz, K, Miraldi, ER, Pokrovskii, M, Madi, A, Yosef, N, Wortman, I, Chen, X, Watters, A, Carriero, N, Awasthi, A, Regev, A, Bonneau, R, Littman, DR, Kuchroo, VK. 2017. Critical role of IRF1 and BATF in preparing the chromatin landscape during Tr1 differentiation. Nature Immunology. , , Raviram, R, Rocha, PD, Mueller, CL, Miraldi, ER, Fu, Y, Swanzey, E, Badri, S, Proudhon, C, Snetkova, V, Bonneau, R, Skok, JA. 2016. A method to reproducibly identify genome-wide interactions captured by 4C-Seq experiments. PLoS Computational Biology. , 12 3, e1004780Kurtz, ZD*, Mueller, CL*, Miraldi, ER*, Littman, DR, Blaser, MJ, Bonneau, R. 2015. Sparse and compositionally robust inference of microbial ecological networks. PLoS Computational Biology. , 11 5, e1004226Miraldi, ER, Sharfi, H, Friedline, RH, Johnson, H, Zhang T, Lau, K, Ko, HJ, Curran, TG, Haigis, KM, Yaffe, YB, Bonneau, R, Lauffenburger, DA, Kahn, BB, Kim, J, Neel, BG, Saghatelian, A, White, FM. 2013. Molecular network analysis of protein-tyrosine phosphorylation and altered lipid metabolism in liver-specific PTP1b deletion mice. Integrative Biology. , 5 7, 940Huang, PH, Miraldi, ER, Xu, AM, Kundukulam, VA, Del Rosario, AM, Flynn, RA, Cavenee, WK, Furnari, FB, White, FM. 2010. Phosphotyrosine signaling analysis of site-specific mutations on EGFRvIII identifies determinants governing glioblastoma cell growth. Molecular BioSystems, 6 7, 1227
Karwacz, K, Miraldi, ER, Pokrovskii, M, Madi, A, Yosef, N, Wortman, I, Chen, X, Watters, A, Carriero, N, Awasthi, A, Regev, A, Bonneau, R, Littman, DR, Kuchroo, VK. 2017. Critical role of IRF1 and BATF in preparing the chromatin landscape during Tr1 differentiation. Nature Immunology. , , Raviram, R, Rocha, PD, Mueller, CL, Miraldi, ER, Fu, Y, Swanzey, E, Badri, S, Proudhon, C, Snetkova, V, Bonneau, R, Skok, JA. 2016. A method to reproducibly identify genome-wide interactions captured by 4C-Seq experiments. PLoS Computational Biology. , 12 3, e1004780Kurtz, ZD*, Mueller, CL*, Miraldi, ER*, Littman, DR, Blaser, MJ, Bonneau, R. 2015. Sparse and compositionally robust inference of microbial ecological networks. PLoS Computational Biology. , 11 5, e1004226Miraldi, ER, Sharfi, H, Friedline, RH, Johnson, H, Zhang T, Lau, K, Ko, HJ, Curran, TG, Haigis, KM, Yaffe, YB, Bonneau, R, Lauffenburger, DA, Kahn, BB, Kim, J, Neel, BG, Saghatelian, A, White, FM. 2013. Molecular network analysis of protein-tyrosine phosphorylation and altered lipid metabolism in liver-specific PTP1b deletion mice. Integrative Biology. , 5 7, 940Huang, PH, Miraldi, ER, Xu, AM, Kundukulam, VA, Del Rosario, AM, Flynn, RA, Cavenee, WK, Furnari, FB, White, FM. 2010. Phosphotyrosine signaling analysis of site-specific mutations on EGFRvIII identifies determinants governing glioblastoma cell growth. Molecular BioSystems, 6 7, 1227