Rsrc
J-GLOBAL ID:202010001343393749   Research Resource code:NBDC02002 Update date:Jul. 09, 2020

probeBase

probeBase
Owning Organization:
  • University of Vienna, Department of Microbiology and Ecosystem Science
Resource classification: Database
Tag (subject)  (2): Genome/Gene ,  RNA
Tag (data type)  (2): Sequence ,  Method
Species (1): All (NCBI Taxonomy ID: 1)
Overview:
probeBase is a manually maintained and curated database of rRNA-targeted oligonucleotide probes and primers. Contextual information and multiple options for evaluating in silico hybridization performance against the most recent rRNA sequence databases are provided for each oligonucleotide entry, which makes probeBase an important and frequently used resource for microbiology research and diagnostics.
The major features of probeBase include a classification of probes and primers according to the NCBI taxonomy database, a powerful and customizable search function, which serves to query for target organisms, probe names, primers, target sites, and references. The probeBase match tool can be used to match near-full length rRNA sequences against probeBase and find all published probes targeting the query sequences. The new proxy match tool extends this analysis to partial rRNA sequences, which exploits full-length sequences in the rRNA sequence database SILVA to find published probes potentially targeting partial query sequences. A tool for submitting new or missing probe sequences or references helps to keep probeBase up-to-date.
Source: FAIRsharing
Record maintainer: See the corresponding part in the FAIRsharing record
Record license: Creative Commons Attribution and Share-alike (CC-BY-SA) International 4.0 license

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