probebase.csb.univie.ac.at

Welcome to probeBase | probeBase 2016

Is a curated database of rRNA-targeted oligonucleotide probes and primers. Search probeBase for target organisms, probe names, primers, target sites, references, etc. Match rRNA sequence(s) against probeBase and find all published probes targeting your sequence(s). Match partial rRNA sequence(s) against full-length sequences in SILVA. And find published probes potentially targeting your sequence(s). View lists of probes (according to probe categories), primers, microarrays, references, etc.

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Welcome to probeBase | probeBase 2016 | probebase.csb.univie.ac.at Reviews

<META> DESCRIPTION

Is a curated database of rRNA-targeted oligonucleotide probes and primers. Search probeBase for target organisms, probe names, primers, target sites, references, etc. Match rRNA sequence(s) against probeBase and find all published probes targeting your sequence(s). Match partial rRNA sequence(s) against full-length sequences in SILVA. And find published probes potentially targeting your sequence(s). View lists of probes (according to probe categories), primers, microarrays, references, etc.

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1 calculating

2 press esc

3 to cancel

4 main menu

5 match

6 proxy

7 lists

8 links

9 credits

10 probebase

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Welcome to probeBase | probeBase 2016 | probebase.csb.univie.ac.at Reviews

https://probebase.csb.univie.ac.at

Is a curated database of rRNA-targeted oligonucleotide probes and primers. Search probeBase for target organisms, probe names, primers, target sites, references, etc. Match rRNA sequence(s) against probeBase and find all published probes targeting your sequence(s). Match partial rRNA sequence(s) against full-length sequences in SILVA. And find published probes potentially targeting your sequence(s). View lists of probes (according to probe categories), primers, microarrays, references, etc.

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probebase.csb.univie.ac.at

1

Proxy match | probeBase 2016

http://probebase.csb.univie.ac.at/pb_proxy

This tool complements the functionality of the ‘Match’ tool when applied to partial rRNA query sequence(s). Use the ‘Proxy’ tool to find probes/primers that potentially target an organism that is only represented by a short rRNA gene read e.g. as obtained by multiplexed amplicon sequencing with next-generation sequencing technologies. The tool can be tested using the Load example button, which pastes example partial 16S rRNA sequences in fasta format into the text field. List of probes and primers.

2

Lists | probeBase 2016

http://probebase.csb.univie.ac.at/node/7

List probes by category. Iron- and manganese-reducing bacteria. Iron- and manganese-oxidizing bacteria. Aerobic hydrogen-oxidizing ("Knallgas") bacteria. Bacteria of medical or hygienical relevance. Bacteria of relevance in wastewater treatment. Animal and human associated microbiota. All probes and primers. Probes tested for FISH. By Daniel Greuter, Alexander Loy, Matthias Horn, and Thomas Rattei,. Department of Microbiology and Ecosystem Science. Greuter et al. 2016. Nucleic Acids Res.

3

Links | probeBase 2016

http://probebase.csb.univie.ac.at/node/3

Ribosomal RNA-related web resources. A software environment for sequence data. 16S rRNA database and online analysis tools; ARB compatible. The Ribosomal Database Project II (RDP). 16S rRNA database and online analysis tools. 16S rRNA database and ARB compatible online-workbench. A resource for evaluating probe and primer specificity. A web tool for the computational evaluation of RNA-targeted FISH probes and primers. The All-Species Living Tree' Project. RRNA Operon Number Database. The RNA World Website.

4

Welcome to probeBase | probeBase 2016

http://probebase.csb.univie.ac.at/node/8

Is a curated database of rRNA-targeted oligonucleotide probes and primers. Search probeBase for target organisms, probe names, primers, target sites, references, etc. Match rRNA sequence(s) against probeBase and find all published probes targeting your sequence(s). Match partial rRNA sequence(s) against full-length sequences in SILVA. And find published probes potentially targeting your sequence(s). View lists of probes (according to probe categories), primers, microarrays, references, etc.

5

Credits | probeBase 2016

http://probebase.csb.univie.ac.at/node/1

Is maintained by the Department of Microbiology and Ecosystem Science at the University of Vienna. If you use probeBase as a tool in your published research, we ask that either of these papers be cited:. Greuter D, Loy A, Horn M, Rattei T. 2016. probeBase an online resource for rRNA-targeted oligonucleotide probes and primers: new features 2016. Nucleic Acids Res. 10.1093/nar/gkv1232 Full text. ProbeBase offers direct submission of sequences to the TestProbe and TestPrime tools of SILVA. This website was...

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Welcome to probeBase | probeBase 2016

Is a curated database of rRNA-targeted oligonucleotide probes and primers. Search probeBase for target organisms, probe names, primers, target sites, references, etc. Match rRNA sequence(s) against probeBase and find all published probes targeting your sequence(s). Match partial rRNA sequence(s) against full-length sequences in SILVA. And find published probes potentially targeting your sequence(s). View lists of probes (according to probe categories), primers, microarrays, references, etc.

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