ArticleNature methods2013
Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos.
Article in Nature methods, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed, 62 citations in OpenAlex.
- Synthetic Regulatory Genomics.Annual review of genomics and human genetics · 2026Review
- Spatial-scERA: a method for reconstructing spatial single-cell enhancer activity in multicellular organisms.Nucleic acids research · 2025Article
- The chromatin signatures of enhancers and their dynamic regulation.Nucleus (Austin, Tex.) · 2023Review
- AAV Deployment of Enhancer-Based Expression Constructs In Vivo in Mouse Brain.Journal of visualized experiments : JoVE · 2022Article
- Integration of Count Difference and Curve Similarity in Negative Regulatory Element Detection.Frontiers in genetics · 2022Article
- Quantitative-enhancer-FACS-seq (QeFS) reveals epistatic interactions among motifs within transcriptional enhancers in developing Drosophila tissue.Genome biology · 2021Article
- An explainable artificial intelligence approach for decoding the enhancer histone modifications code and identification of novel enhancers in Drosophila.Genome biology · 2021Article
- Transcriptional enhancers and their communication with gene promoters.Cellular and molecular life sciences : CMLS · 2021Review
- Massively Parallel Reporter Assays: Defining Functional Psychiatric Genetic Variants Across Biological Contexts.Biological psychiatry · 2021Review
- Systematic identification ofeLife · 2020Article
- Article
- Functional genomic approaches to elucidate the role of enhancers during development.Wiley interdisciplinary reviews. Systems biology and medicine · 2020Review
- Transcriptional Silencers in Drosophila Serve a Dual Role as Transcriptional Enhancers in Alternate Cellular Contexts.Molecular cell · 2020Article
- Linear models enable powerful differential activity analysis in massively parallel reporter assays.BMC genomics · 2019Article
- Article
- Functional assessment of human enhancer activities using whole-genome STARR-sequencing.Genome biology · 2017Article
- Cis-regulatory landscapes of four cell types of the retina.Nucleic acids research · 2017Article
- Identification of Human Lineage-Specific Transcriptional Coregulators Enabled by a Glossary of Binding Modules and Tunable Genomic Backgrounds.Cell systems · 2017Article
- Progress and challenges in bioinformatics approaches for enhancer identification.Briefings in bioinformatics · 2016Review
- Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions.Nature biotechnology · 2016Article
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15 authors at 6 institutions in 3 countries.
Funding
Abstract
Transcriptional enhancers are a primary mechanism by which tissue-specific gene expression is achieved. Despite the importance of these regulatory elements in development, responses to environmental stresses and disease, testing enhancer activity in animals remains tedious, with a minority of enhancers having been characterized. Here we describe 'enhancer-FACS-seq' (eFS) for highly parallel identification of active, tissue-specific enhancers in Drosophila melanogaster embryos. Analysis of enhancers identified by eFS as being active in mesodermal tissues revealed enriched DNA binding site motifs of known and putative, previously uncharacterized mesodermal transcription factors. Naive Bayes classifiers using transcription factor binding site motifs accurately predicted mesodermal enhancer activity. Application of eFS to other cell types and organisms should accelerate the cataloging of enhancers and understanding how transcriptional regulation is encoded in them.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.