Sie sind hier:Universität Wienu:scholarDetail o:930761
Titel
probeBase—an online resource for rRNA-targeted oligonucleotide probes and primers: new features 2016
Autor*in
Daniel Greuter
Autor*in
Alexander Loy
Autor*in
Matthias Horn
... show all
Abstract
probeBase http://www.probebase.net 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. Here we present a major update of probeBase, which was last featured in the NAR Database Issue 2007. This update describes a complete remodeling of the database architecture and environment to accommodate computationally efficient access. Improved search functions, sequence match tools and data output now extend the opportunities for finding suitable hierarchical probe sets that target an organism or taxon at different taxonomic levels. To facilitate the identification of complementary probe sets for organisms represented by short rRNA sequence reads generated by amplicon sequencing or metagenomic analysis with next generation sequencing technologies such as Illumina and IonTorrent, we introduce a novel tool that recovers surrogate near full-length rRNA sequences for short query sequences and finds matching oligonucleotides in probeBase.
Objekt-Typ
Sprache
Englisch [eng]
Erscheinungsdatum
2015
Erschienen in
Titel
Nucleic Acids Research
Band
44
Ausgabe
D1
Verlag
Oxford University Press (OUP)
Projektnummer
P25111-B22 – Austrian Science Fund (FWF)
Projektnummer
I2320-B22 – Austrian Science Fund (FWF)
Projektnummer
I1628-B22 – Austrian Science Fund (FWF)
Projektnummer
LS12-001 – Vienna Science and Technology Fund (WWTF)
Projektnummer
StG EVOCHLAMY, 281633 – European Union (all programmes)
Persistent identifier
https://phaidra.univie.ac.at/o:930761
Zugänglichkeit
Rechteangabe
© The Author(s) 2015

Download

Universität Wien | Universitätsring 1 | 1010 Wien | T +43-1-4277-0