ArticleScientific reports2015
Promoter-level expression clustering identifies time development of transcriptional regulatory cascades initiated by ErbB receptors in breast cancer cells.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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23 citing papers in PubMed, 34 citations in OpenAlex.
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- Trans-omics analysis of insulin action reveals a cell growth subnetwork which co-regulates anabolic processes.iScience · 2022Article
- A systematic analysis of signaling reactivation and drug resistance.Cell reports · 2021Article
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- Over-expression of EGFR regulated by RARA contributes to 5-FU resistance in colon cancer.Aging · 2020Article
- Hybrid analysis of gene dynamics predicts context-specific expression and offers regulatory insights.Bioinformatics (Oxford, England) · 2019Article
- NET-CAGE characterizes the dynamics and topology of human transcribed cis-regulatory elements.Nature genetics · 2019Article
- YAP-TEAD signaling promotes basal cell carcinoma development via a c-JUN/AP1 axis.The EMBO journal · 2018Article
- Entropy in Cell Biology: Information Thermodynamics of a Binary Code and Szilard Engine Chain Model of Signal Transduction.Entropy (Basel, Switzerland) · 2018Review
- Prediction and identification of transcriptional regulatory elements at the lung cancer-specificOncology letters · 2018Article
- Analysis of Cell Signal Transduction Based on Kullback-Leibler Divergence: Channel Capacity and Conservation of Its Production Rate during Cascade.Entropy (Basel, Switzerland) · 2018Article
- The Conservation of Average Entropy Production Rate in a Model of Signal Transduction: Information Thermodynamics Based on the Fluctuation Theorem.Entropy (Basel, Switzerland) · 2018Article
- Information Thermodynamics Derives the Entropy Current of Cell Signal Transduction as a Model of a Binary Coding System.Entropy (Basel, Switzerland) · 2018Article
- Transcriptionally inducible Pleckstrin homology-like domain, family A, member 1, attenuates ErbB receptor activity by inhibiting receptor oligomerization.The Journal of biological chemistry · 2018Article
- Aberrant control of NF-κB in cancer permits transcriptional and phenotypic plasticity, to curtail dependence on host tissue: molecular mode.Cancer biology & medicine · 2017Article
- Pseudotemporal Ordering of Single Cells Reveals Metabolic Control of Postnatal β Cell Proliferation.Cell metabolism · 2017Article
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Authors and funding
14 authors at 5 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The analysis of CAGE (Cap Analysis of Gene Expression) time-course has been proposed by the FANTOM5 Consortium to extend the understanding of the sequence of events facilitating cell state transition at the level of promoter regulation. To identify the most prominent transcriptional regulations induced by growth factors in human breast cancer, we apply here the Complexity Invariant Dynamic Time Warping motif EnRichment (CIDER) analysis approach to the CAGE time-course datasets of MCF-7 cells stimulated by epidermal growth factor (EGF) or heregulin (HRG). We identify a multi-level cascade of regulations rooted by the Serum Response Factor (SRF) transcription factor, connecting the MAPK-mediated transduction of the HRG stimulus to the negative regulation of the MAPK pathway by the members of the DUSP family phosphatases. The finding confirms the known primary role of FOS and FOSL1, members of AP-1 family, in shaping gene expression in response to HRG induction. Moreover, we identify a new potential regulation of DUSP5 and RARA (known to antagonize the transcriptional regulation induced by the estrogen receptors) by the activity of the AP-1 complex, specific to HRG response. The results indicate that a divergence in AP-1 regulation determines cellular changes of breast cancer cells stimulated by ErbB receptors.
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