ArticleNucleic acids research2003
probeBase: an online resource for rRNA-targeted oligonucleotide probes.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 104 papers.
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Who cites it
104 citing papers in PubMed.
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- Biofilm infections of endobronchial valves in COPD patients after endoscopic lung volume reduction: a pilot study with FISHseq.Scientific reports · 2024Article
- MiPRIME: an integrated and intelligent platform for mining primer and probe sequences of microbial species.Bioinformatics (Oxford, England) · 2024Article
- A Spatial Multi-Modal Dissection of Host-Microbiome Interactions within the Colitis Tissue Microenvironment.bioRxiv : the preprint server for biology · 2024Article
- The Improvement of Fluorescence In Situ Hybridization Technique Based on Explorations of Symbionts in Cicadas.International journal of molecular sciences · 2023Article
- Enrichment and characterization of a nitric oxide-reducing microbial community in a continuous bioreactor.Nature microbiology · 2023Article
- Hydrolysis capacity of different sized granules in a full-scale aerobic granular sludge (AGS) reactor.Water research X · 2022Article
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- Sequence-Specific Capture of Oligonucleotide Probes (SCOPE): a Simple and Rapid Microbial rRNA Quantification Method Using a Molecular Weight Cutoff Membrane.Applied and environmental microbiology · 2021Article
- New Endohyphal Relationships between Mucoromycota andApplied and environmental microbiology · 2021Article
- Growth Coordination Between Butyrate-Oxidizing Syntrophs and Hydrogenotrophic Methanogens.Frontiers in microbiology · 2021Article
- Effect of anaerobic phases length on denitrifying dephosphatation biocenosis - a case study of IFAS-MBSBBR.BMC microbiology · 2020Article
- Evidence of mutations conferring resistance to clarithromycin in wastewater and activated sludge.3 Biotech · 2020Article
- Is It First the Egg or the Shrimp? - Diversity and Variation in Microbial Communities Colonizing Broods of the Vent ShrimpFrontiers in microbiology · 2019Article
- Application of hierarchical oligonucleotide primer extension (HOPE) to assess relative abundances of ammonia- and nitrite-oxidizing bacteria.BMC microbiology · 2017Article
- Implications of direct amplification for measuring antimicrobial resistance using point-of-care devices.Analytical methods : advancing methods and applications · 2017Article
- Enhancing methane production from food waste fermentate using biochar: the added value of electrochemical testing in pre-selecting the most effective type of biochar.Biotechnology for biofuels · 2017Article
44 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Ribosomal RNA-(rRNA)-targeted oligonucleotide probes are widely used for culture-independent identification of microorganisms in environmental and clinical samples. ProbeBase is a comprehensive database containing more than 700 published rRNA-targeted oligonucleotide probe sequences (status August 2002) with supporting bibliographic and biological annotation that can be accessed through the internet at http://www.probebase.net. Each oligonucleotide probe entry contains information on target organisms, target molecule (small- or large-subunit rRNA) and position, G+C content, predicted melting temperature, molecular weight, necessity of competitor probes, and the reference that originally described the oligonucleotide probe, including a link to the respective abstract at PubMed. In addition, probes successfully used for fluorescence in situ hybridization (FISH) are highlighted and the recommended hybridization conditions are listed. ProbeBase also offers difference alignments for 16S rRNA-targeted probes by using the probe match tool of the ARB software and the latest small-subunit rRNA ARB database (release June 2002). The option to directly submit probe sequences to the probe match tool of the Ribosomal Database Project II (RDP-II) further allows one to extract supplementary information on probe specificities. The two main features of probeBase, 'search probeBase' and 'find probe set', help researchers to find suitable, published oligonucleotide probes for microorganisms of interest or for rRNA gene sequences submitted by the user. Furthermore, the 'search target site' option provides guidance for the development of new FISH probes.
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Registered trials
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