ArticleNucleic acids research2013
DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 92 papers.
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92 citing papers in PubMed.
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- Ori-Finder 2022: A Comprehensive Web Server for Prediction and Analysis of Bacterial Replication Origins.Genomics, proteomics & bioinformatics · 2022Article
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- Evidence for a chromosome origin unwinding system broadly conserved in bacteria.Nucleic acids research · 2021Article
- DEG 15, an update of the Database of Essential Genes that includes built-in analysis tools.Nucleic acids research · 2021Article
- Blocking, Bending, and Binding: Regulation of Initiation of Chromosome Replication During theFrontiers in microbiology · 2021Review
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- Comprehensive dissection of dispensable genomic regions in Streptomyces based on comparative analysis approach.Microbial cell factories · 2020Article
- gammaBOriS: Identification and Taxonomic Classification of Origins of Replication in Gammaproteobacteria using Motif-based Machine Learning.Scientific reports · 2020Article
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- Colicin Z, a structurally and functionally novel colicin type that selectively kills enteroinvasive Escherichia coli and Shigella strains.Scientific reports · 2019Article
- Comparative genomics of Mycobacterium mucogenicum and Mycobacterium neoaurum clade members emphasizing tRNA and non-coding RNA.BMC evolutionary biology · 2019Article
- Complete Genome Sequence of the Wolbachia wAlbB Endosymbiont of Aedes albopictus.Genome biology and evolution · 2019Article
- DoriC 10.0: an updated database of replication origins in prokaryotic genomes including chromosomes and plasmids.Nucleic acids research · 2019Article
32 more citing papers are in PubMed but not listed here.
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3 authors.
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Abstract
Replication of chromosomes is one of the central events in the cell cycle. Chromosome replication begins at specific sites, called origins of replication (oriCs), for all three domains of life. However, the origins of replication still remain unknown in a considerably large number of bacterial and archaeal genomes completely sequenced so far. The availability of increasing complete bacterial and archaeal genomes has created challenges and opportunities for identification of their oriCs in silico, as well as in vivo. Based on the Z-curve theory, we have developed a web-based system Ori-Finder to predict oriCs in bacterial genomes with high accuracy and reliability by taking advantage of comparative genomics, and the predicted oriC regions have been organized into an online database DoriC, which is publicly available at http://tubic.tju.edu.cn/doric/ since 2007. Five years after we constructed DoriC, the database has significant advances over the number of bacterial genomes, increasing about 4-fold. Additionally, oriC regions in archaeal genomes identified by in vivo experiments, as well as in silico analyses, have also been added to the database. Consequently, the latest release of DoriC contains oriCs for >1500 bacterial genomes and 81 archaeal genomes, respectively.
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