ArticleBMC bioinformatics2015
REGULATOR: a database of metazoan transcription factors and maternal factors for developmental studies.
Article in BMC bioinformatics, 2015. 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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10 citing papers in PubMed, 18 citations in OpenAlex.
- Effects of microRNA-305 knockdown on brain gene expression associated with division of labor in honey bee colonies (Apis mellifera).The Journal of experimental biology · 2024Article
- Dynamics of Chromatin Opening across Larval Development in the Urochordate AscidianInternational journal of molecular sciences · 2024Article
- Convergent and complementary selection shaped gains and losses of eusociality in sweat bees.Nature ecology & evolution · 2023Article
- AnimalTFDB 4.0: a comprehensive animal transcription factor database updated with variation and expression annotations.Nucleic acids research · 2023Article
- Genome-Wide Identification, Comparison, and Expression Analysis of Transcription Factors in AscidianInternational journal of molecular sciences · 2021Article
- Gene expression changes associated with the evolutionary loss of a metabolic trait: lack of lipogenesis in parasitoids.BMC genomics · 2019Article
- AnimalTFDB 3.0: a comprehensive resource for annotation and prediction of animal transcription factors.Nucleic acids research · 2019Article
- Article
- Chaperones, Canalization, and Evolution of Animal Forms.International journal of molecular sciences · 2018Review
- The dynamic landscape of gene regulation during Bombyx mori oogenesis.BMC genomics · 2017Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenes encoding transcription factors that constitute gene-regulatory networks and maternal factors accumulating in egg cytoplasm are two classes of essential genes that play crucial roles in developmental processes. Transcription factors control the expression of their downstream target genes by interacting with cis-regulatory elements. Maternal factors initiate embryonic developmental programs by regulating the expression of zygotic genes and various other events during early embryogenesis.
resultsThis article documents the transcription factors of 77 metazoan species as well as human and mouse maternal factors. We improved the previous method using a statistical approach adding Gene Ontology information to Pfam based identification of transcription factors. This method detects previously un-discovered transcription factors. The novel features of this database are: (1) It includes both transcription factors and maternal factors, although the number of species, in which maternal factors are listed, is limited at the moment. (2) Ontological representation at the cell, tissue, organ, and system levels has been specially designed to facilitate development studies. This is the unique feature in our database and is not available in other transcription factor databases.
conclusionsA user-friendly web interface, REGULATOR ( http://www.bioinformatics.org/regulator/ ), which can help researchers to efficiently identify, validate, and visualize the data analyzed in this study, are provided. Using this web interface, users can browse, search, and download detailed information on species of interest, genes, transcription factor families, or developmental ontology terms.
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