ArticleNucleic acids research2015
Enhancer modeling uncovers transcriptional signatures of individual cardiac cell states in Drosophila.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Heart Enhancers: Development and Disease Control at a Distance.Frontiers in genetics · 2021Review
- Article
- A transcription factor collective defines the HSN serotonergic neuron regulatory landscape.eLife · 2018Article
- Conserved signaling mechanisms in Drosophila heart development.Developmental dynamics : an official publication of the American Association of Anatomists · 2017Review
- Genome-Wide Approaches to Drosophila Heart Development.Journal of cardiovascular development and disease · 2016Article
- Article
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Authors and funding
5 authors.
Funding
Abstract
Here we used discriminative training methods to uncover the chromatin, transcription factor (TF) binding and sequence features of enhancers underlying gene expression in individual cardiac cells. We used machine learning with TF motifs and ChIP data for a core set of cardiogenic TFs and histone modifications to classify Drosophila cell-type-specific cardiac enhancer activity. We show that the classifier models can be used to predict cardiac cell subtype cis-regulatory activities. Associating the predicted enhancers with an expression atlas of cardiac genes further uncovered clusters of genes with transcription and function limited to individual cardiac cell subtypes. Further, the cell-specific enhancer models revealed chromatin, TF binding and sequence features that distinguish enhancer activities in distinct subsets of heart cells. Collectively, our results show that computational modeling combined with empirical testing provides a powerful platform to uncover the enhancers, TF motifs and gene expression profiles which characterize individual cardiac cell fates.
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