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Characterization of Transcriptional Regulatory Networks that Promote and Restrict Identities and Functions of Intestinal Innate Lymphoid Cells.
Immunity.
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Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells.
Genome Research.
2019;
29:449-463.
Castro, DM; de Veaux, NR; Miraldi, ER; Bonneau, R.
Multi-study inference of regulatory networks for more accurate models of gene regulation.
PLoS Computational Biology.
2019;
15:e1006591-e1006591.
Karwacz, K; Miraldi, ER; Pokrovskii, M; Madi, A; Yosef, N; Wortman, I; Chen, X; Watters, A; Carriero, N; Awasthi, A; et al.
Critical role of IRF1 and BATF in forming chromatin landscape during type 1 regulatory cell differentiation.
Nature Immunology.
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18:412-421.
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4C-ker: A Method to Reproducibly Identify Genome-Wide Interactions Captured by 4C-Seq Experiments.
PLoS Computational Biology.
2016;
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Kurtz, ZD; Mueller, CL; Miraldi, ER; Littman, DR; Blaser, MJ; Bonneau, RA.
Sparse and Compositionally Robust Inference of Microbial Ecological Networks.
PLoS Computational Biology.
2015;
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Miraldi, ER; Sharfi, H; Friedline, RH; Johnson, H; Zhang, T; Lau, KS; Ko, HJ; Curran, TG; Haigis, KM; Yaffe, MB; et al.
Molecular network analysis of phosphotyrosine and lipid metabolism in hepatic PTP1b deletion mice.
Integrative Biology: interdisciplinary approaches for molecular and cellular life sciences.
2013;
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