ArticleCurrent genomics2014
Recent Advances in the Identification of Replication Origins Based on the Z-curve Method.
Article in Current genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 20 citations in OpenAlex.
- Interpretable prediction of DNA replication origins in S. cerevisiae using DNABERT and DNABERT-2.BMC bioinformatics · 2026Article
- Unveiling human origins of replication using deep learning: accurate prediction and comprehensive analysis.Briefings in bioinformatics · 2023Article
- Ori-Finder 2022: A Comprehensive Web Server for Prediction and Analysis of Bacterial Replication Origins.Genomics, proteomics & bioinformatics · 2022Article
- Computational characterization and analysis of molecular sequence data of Elizabethkingia meningoseptica.BMC research notes · 2022Article
- Quantitative analysis of correlation between AT and GC biases among bacterial genomes.PloS one · 2017Article
- Context based computational analysis and characterization of ARS consensus sequences (ACS) of Saccharomyces cerevisiae genome.Genomics data · 2016Article
- Diversification of DnaA dependency for DNA replication in cyanobacterial evolution.The ISME journal · 2016Article
- Acidianus Tailed Spindle Virus: a New Archaeal Large Tailed Spindle Virus Discovered by Culture-Independent Methods.Journal of virology · 2016Article
- Editorial: DNA Replication Origins in Microbial Genomes.Frontiers in microbiology · 2015Article
- Bacteria may have multiple replication origins.Frontiers in microbiology · 2015Article
- Choosing a suitable method for the identification of replication origins in microbial genomes.Frontiers in microbiology · 2015Review
- Identification of the Replication Origins from Cyanothece ATCC 51142 and Their Interactions with the DnaA Protein: From In Silico to In Vitro Studies.Frontiers in microbiology · 2015Article
- Ori-Finder 2, an integrated tool to predict replication origins in the archaeal genomes.Frontiers in microbiology · 2014Article
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1 author at 1 institution in 1 country.
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Abstract
Precise DNA replication is critical for the maintenance of genetic integrity in all organisms. In all three domains of life, DNA replication starts at a specialized locus, termed as the replication origin, oriC or ORI, and its identification is vital to understanding the complex replication process. In bacteria and eukaryotes, replication initiates from single and multiple origins, respectively, while archaea can adopt either of the two modes. The Z-curve method has been successfully used to identify replication origins in genomes of various species, including multiple oriCs in some archaea. Based on the Z-curve method and comparative genomics analysis, we have developed a web-based system, Ori-Finder, for finding oriCs in bacterial genomes with high accuracy. Predicted oriC regions in bacterial genomes are organized into an online database, DoriC. Recently, archaeal oriC regions identified by both in vivo and in silico methods have also been included in the database. Here, we summarize the recent advances of in silico prediction of oriCs in bacterial and archaeal genomes using the Z-curve based method.
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