biostudies-literatureWen JNovo Nordisk FondenLundbeck Foundation6207-21https://www.ebi.ac.uk/biostudies/studies/S-EPMC4513874biostudies-literatureUnknown43(13)We report a high-resolution time series study of transcriptome dynamics following antimiR-mediated inhibition of miR-9 in a Hodgkin lymphoma cell-line-the first such dynamic study of the microRNA inhibition response-revealing both general and specific aspects of the physiological response. We show miR-9 inhibition inducing a multiphasic transcriptome response, with a direct target perturbation before 4 h, earlier than previously reported, amplified by a downstream peak at ∼32 h consistent with an indirect response due to secondary coherent regulation. Predictive modelling indicates a major role for miR-9 in post-transcriptional control of RNA processing and RNA binding protein regulation. Cluster analysis identifies multiple co-regulated gene regulatory modules. Functionally, we observe a Nucleic acids researchTranscriptome dynamics of the microRNA inhibition response.PMC4513874R100-2011-8756NNF13OC0006395NNF14SA0011351R151-2013-14476Krogh AWen JKauppinen SLund AHParker BJLeucci EVendramin RfalseTranscriptome dynamics of the microRNA inhibition response.We report a high-resolution time series study of transcriptome dynamics following antimiR-mediated inhibition of miR-9 in a Hodgkin lymphoma cell-line-the first such dynamic study of the microRNA inhibition response-revealing both general and specific aspects of the physiological response. We show miR-9 inhibition inducing a multiphasic transcriptome response, with a direct target perturbation before 4 h, earlier than previously reported, amplified by a downstream peak at ∼32 h consistent with an indirect response due to secondary coherent regulation. Predictive modelling indicates a major role for miR-9 in post-transcriptional control of RNA processing and RNA binding protein regulation. Cluster analysis identifies multiple co-regulated gene regulatory modules. Functionally, we observe a 2015-01-01T00:00:00Z2015 Jul2026-05-02T11:31:25.379Z2019-03-27T01:55:47ZS-EPMC45138742608939310.1093/nar/gkv603