Ma CZ and Brent MR (2021) Inferring TF activities and activity regulators from gene expression data with constraints from TF perturbation data. Bioinformatics 37(9):1234-1245 PMID:33135076
Kang Y, et al. (2020) Dual threshold optimization and network inference reveal convergent evidence from TF binding locations and TF perturbation responses. Genome Res 30(3):459-471 PMID:32060051
Michael DG, et al. (2016) Model-based transcriptome engineering promotes a fermentative transcriptional state in yeast. Proc Natl Acad Sci U S A 113(47):E7428-E7437 PMID:27810962
Kuttykrishnan S, et al. (2010) A quantitative model of glucose signaling in yeast reveals an incoherent feed forward loop leading to a specific, transient pulse of transcription. Proc Natl Acad Sci U S A 107(38):16743-8 PMID:20810924