ArticleThe Journal of biological chemistry2011
Genome-wide in silico identification of new conserved and functional retinoic acid receptor response elements (direct repeats separated by 5 bp).
Article in The Journal of biological chemistry, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
54 citing papers in PubMed, 95 citations in OpenAlex.
- Aldehyde dehydrogenase 1A3 influences breast cancer progression via differential retinoic acid signaling.Molecular oncology · 2015Trial
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- Informed by Cancer Stem Cells of Solid Tumors: Advances in Treatments Targeting Tumor-Promoting Factors and Pathways.International journal of molecular sciences · 2024Review
- The Contribution of Hippocampal All-Trans Retinoic Acid (ATRA) Deficiency to Alzheimer's Disease: A Narrative Overview of ATRA-Dependent Gene Expression in Post-Mortem Hippocampal Tissue.Antioxidants (Basel, Switzerland) · 2023Review
- Anterior Insula-Associated Social Novelty Recognition: Pivotal Roles of a Local Retinoic Acid Cascade and Oxytocin Signaling.The American journal of psychiatry · 2023Article
- Review
- Genetic loss-of-function does not support gain-of-function studies suggesting retinoic acid controls limb bud timing and scaling.Frontiers in cell and developmental biology · 2023Article
- Integration failure of regenerated limb tissue is associated with incongruencies in positional information in the Mexican axolotl.Frontiers in cell and developmental biology · 2023Article
- Pharmacological retinoic acid alters limb patterning during regeneration but endogenous retinoic acid is not required.Regenerative medicine · 2022Article
- Article
- The role of retinoic acid in the production of immunoglobulin A.Mucosal immunology · 2022Review
- Mechanisms of Feedback Regulation of Vitamin A Metabolism.Nutrients · 2022Review
- Review
- RARG variant predictive of doxorubicin-induced cardiotoxicity identifies a cardioprotective therapy.Cell stem cell · 2021Article
- A master of all trades - linking retinoids to different signalling pathways through the multi-purpose receptor STRA6.Cell death discovery · 2021Review
- Aldehyde dehydrogenase 1A1 and 1A3 isoforms - mechanism of activation and regulation in cancer.Cellular signalling · 2021Review
- Examining the Developmental Trajectory of anEnvironmental health perspectives · 2021Article
- Transcriptional-regulatory convergence across functional MDD risk variants identified by massively parallel reporter assays.Translational psychiatry · 2021Article
- Altered vitamin A metabolism in human liver slices corresponds to fibrogenesis.Clinical and translational science · 2021Article
- Using an aquatic model, Xenopus laevis, to uncover the role of chromodomain 1 in craniofacial disorders.Genesis (New York, N.Y. : 2000) · 2021Article
Corrections and comments
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Authors and funding
9 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The nuclear retinoic acid receptors interact with specific retinoic acid (RA) response elements (RAREs) located in the promoters of target genes to orchestrate transcriptional networks involved in cell growth and differentiation. Here we describe a genome-wide in silico analysis of consensus DR5 RAREs based on the recurrent RGKTSA motifs. More than 15,000 DR5 RAREs were identified and analyzed for their localization and conservation in vertebrates. We selected 138 elements located ±10 kb from transcription start sites and gene ends and conserved across more than 6 species. We also validated the functionality of these RAREs by analyzing their ability to bind retinoic acid receptors (ChIP sequencing experiments) as well as the RA regulation of the corresponding genes (RNA sequencing and quantitative real time PCR experiments). Such a strategy provided a global set of high confidence RAREs expanding the known experimentally validated RAREs repertoire associated to a series of new genes involved in cell signaling, development, and tumor suppression. Finally, the present work provides a valuable knowledge base for the analysis of a wider range of RA-target genes in different species.
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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.