ArticleDevelopment (Cambridge, England)2016
Chromatin profiling of Drosophila CNS subpopulations identifies active transcriptional enhancers.
Article in Development (Cambridge, England), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed, 15 citations in OpenAlex.
- Entangled and non-modular enhancer sequences producing independent spatial activities.Science advances · 2024Article
- Identification of a novel downstreammicroPublication biology · 2024Article
- Prediction accuracy of regulatory elements from sequence varies by functional sequencing technique.Frontiers in cellular and infection microbiology · 2023Article
- Transcriptional Enhancers inGenetics · 2020Review
- ATAC-seq reveals regional differences in enhancer accessibility during the establishment of spatial coordinates in theGenome research · 2019Article
- Enhancer identification and activity evaluation in the red flour beetle,Development (Cambridge, England) · 2018Article
- Global analysis of primary mesenchyme cell cis-regulatory modules by chromatin accessibility profiling.BMC genomics · 2018Article
- CATaDa reveals global remodelling of chromatin accessibility during stem cell differentiation in vivo.eLife · 2018Article
- Perspectives on Gene Regulatory Network Evolution.Trends in genetics : TIG · 2017Review
- Creating cell type-specific mutants by enhancer mutagenesis.Genes & development · 2017Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
One of the key issues in studying transcriptional regulation during development is how to employ genome-wide assays that reveals sites of open chromatin and transcription factor binding to efficiently identify biologically relevant genes and enhancers. Analysis of Drosophila CNS midline cell development provides a useful system for studying transcriptional regulation at the genomic level due to a large, well-characterized set of midline-expressed genes and in vivo validated enhancers. In this study, FAIRE-seq on FACS-purified midline cells was performed and the midline FAIRE data were compared with whole-embryo FAIRE data. We find that regions of the genome with a strong midline FAIRE peak and weak whole-embryo FAIRE peak overlap with known midline enhancers and provide a useful predictive tool for enhancer identification. In a complementary analysis, we compared a large dataset of fragments that drive midline expression in vivo with the FAIRE data. Midline enhancer fragments with a midline FAIRE peak tend to be near midline-expressed genes, whereas midline enhancers without a midline FAIRE peak were often distant from midline-expressed genes and unlikely to drive midline transcription in vivo.
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Registered trials
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.