ArticleNucleic acids research2008
ProTISA: a comprehensive resource for translation initiation site annotation in prokaryotic genomes.
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 18 papers.
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18 citing papers in PubMed, 28 citations in OpenAlex.
- Deciphering gene redundancy in prokaryotic genomes provides evolutionary insights for pathogenicity and its roles in clinical infections.Nature communications · 2025Article
- Recognition of cyanobacteria promoters via Siamese network-based contrastive learning under novel non-promoter generation.Briefings in bioinformatics · 2024Article
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- Selection on start codons in prokaryotes and potential compensatory nucleotide substitutions.Scientific reports · 2017Article
- A Novel Quality Measure and Correction Procedure for the Annotation of Microbial Translation Initiation Sites.PloS one · 2015Article
- Characterization of the cryptic AV3 promoter of ageratum yellow vein virus in prokaryotic and eukaryotic systems.PloS one · 2014Article
- Gene prediction in metagenomic fragments based on the SVM algorithm.BMC bioinformatics · 2013Article
- Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and Pyrococcus furiosus DSM 3638.Current microbiology · 2012Article
- Leaderless genes in bacteria: clue to the evolution of translation initiation mechanisms in prokaryotes.BMC genomics · 2011Article
- ClubSub-P: Cluster-Based Subcellular Localization Prediction for Gram-Negative Bacteria and Archaea.Frontiers in microbiology · 2011Article
- Prodigal: prokaryotic gene recognition and translation initiation site identification.BMC bioinformatics · 2010Article
- DIGA--a database of improved gene annotation for phytopathogens.BMC genomics · 2010Article
- Article
- Comparative genomic analysis of ten Streptococcus pneumoniae temperate bacteriophages.Journal of bacteriology · 2009Article
- PairWise Neighbours database: overlaps and spacers among prokaryote genomes.BMC genomics · 2009Article
- Shuttle vector expression in Thermococcus kodakaraensis: contributions of cis elements to protein synthesis in a hyperthermophilic archaeon.Applied and environmental microbiology · 2008Article
- Bioinformatics in China: a personal perspective.PLoS computational biology · 2008Review
- Computational evaluation of TIS annotation for prokaryotic genomes.BMC bioinformatics · 2008Article
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Authors and funding
6 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Correct annotation of translation initiation site (TIS) is essential for both experiments and bioinformatics studies of prokaryotic translation initiation mechanism as well as understanding of gene regulation and gene structure. Here we describe a comprehensive database ProTISA, which collects TIS confirmed through a variety of available evidences for prokaryotic genomes, including Swiss-Prot experiments record, literature, conserved domain hits and sequence alignment between orthologous genes. Moreover, by combining the predictions from our recently developed TIS post-processor, ProTISA provides a refined annotation for the public database RefSeq. Furthermore, the database annotates the potential regulatory signals associated with translation initiation at the TIS upstream region. As of July 2007, ProTISA includes 440 microbial genomes with more than 390 000 confirmed TISs. The database is available at http://mech.ctb.pku.edu.cn/protisa.
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