ArticleNucleic acids research2008
REDfly 2.0: an integrated database of cis-regulatory modules and transcription factor binding sites in Drosophila.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers.
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Who cites it
57 citing papers in PubMed.
- Transcriptional regulation of neuropeptide receptors underlies context-dependent adaptation in Drosophila melanogaster.FEBS open bio · 2026Article
- Neutral Models of De Novo Gene Emergence Suggest that Gene Evolution has a Preferred Trajectory.Molecular biology and evolution · 2023Article
- Review
- Two promoters integrate multiple enhancer inputs to drive wild-type knirps expression in the Drosophila melanogaster embryo.Genetics · 2021Article
- Transcriptional Enhancers inGenetics · 2020Review
- Chromatin Structure and Function in Mosquitoes.Frontiers in genetics · 2020Review
- Exploiting regulatory heterogeneity to systematically identify enhancers with high accuracy.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- REDfly: the transcriptional regulatory element database for Drosophila.Nucleic acids research · 2019Article
- Refining a steroidogenic model: an analysis of RNA-seq datasets from insect prothoracic glands.BMC genomics · 2018Article
- FlyExpress 7: An Integrated Discovery Platform To Study Coexpressed Genes UsingG3 (Bethesda, Md.) · 2017Article
- Structure of the Transcriptional Regulatory Network Correlates with Regulatory Divergence in Drosophila.Molecular biology and evolution · 2017Article
- An Enhancer's Length and Composition Are Shaped by Its Regulatory Task.Frontiers in genetics · 2017Article
- The Insect Prothoracic Gland as a Model for Steroid Hormone Biosynthesis and Regulation.Cell reports · 2016Article
- Hidden Markov induced Dynamic Bayesian Network for recovering time evolving gene regulatory networks.Scientific reports · 2015Article
- An affinity-structure database of helix-turn-helix: DNA complexes with a universal coordinate system.BMC bioinformatics · 2015Article
- GAMI-CRM: Using de novo motif inference to detect cis-regulatory modules.Proceedings of the ... Congress on Evolutionary Computation. Congress on Evolutionary Computation · 2014Article
- Temporal regulation of Dpp signaling output in the Drosophila wing.Developmental dynamics : an official publication of the American Association of Anatomists · 2014Article
- Naturally occurring deletions of hunchback binding sites in the even-skipped stripe 3+7 enhancer.PloS one · 2014Article
- MEF2 is an in vivo immune-metabolic switch.Cell · 2013Article
- Highly parallel assays of tissue-specific enhancers in whole Drosophila embryos.Nature methods · 2013Article
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Authors and funding
3 authors.
Funding
Abstract
The identification and study of the cis-regulatory elements that control gene expression are important areas of biological research, but few resources exist to facilitate large-scale bioinformatics studies of cis-regulation in metazoan species. Drosophila melanogaster, with its well-annotated genome, exceptional resources for comparative genomics and long history of experimental studies of transcriptional regulation, represents the ideal system for regulatory bioinformatics. We have merged two existing Drosophila resources, the REDfly database of cis-regulatory modules and the FlyReg database of transcription factor binding sites (TFBSs), into a single integrated database containing extensive annotation of empirically validated cis-regulatory modules and their constituent binding sites. With the enhanced functionality made possible through this integration of TFBS data into REDfly, together with additional improvements to the REDfly infrastructure, we have constructed a one-stop portal for Drosophila cis-regulatory data that will serve as a powerful resource for both computational and experimental studies of transcriptional regulation. REDfly is freely accessible at http://redfly.ccr.buffalo.edu.
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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.