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Associated diseases

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YODA specifications

Information


Unique identifier OMICS_26635
Name YODA
Alternative name Yet-another Oligonucleotide Design Application
Software type Application/Script
Interface Command line interface, Graphical user interface
Restrictions to use None
Input format FASTA
Operating system Unix/Linux, Mac OS, Windows
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Maintained No

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Publication for Yet-another Oligonucleotide Design Application

YODA in publications

 (2)
PMCID: 2883574
PMID: 20548788
DOI: 10.1371/journal.pone.0011048

[…] optimal probes and analyzing experimental results., perfect match probes (pm) were designed using a two-stage process in which sequence screening was followed by biophysical modeling (). briefly, yoda was the selection tool and probes were generated using the command shown in . probes were generated based on characterized gene sequences from brucella suis. yoda-generated candidate probes […]

PMCID: 2647282
PMID: 19103659
DOI: 10.1093/nar/gkn1001

[…] objectively compare different probe design tools, we have rerun and characterized the results of several popular programs on the full e. coli transcriptome: oligorankpick (41), oligoarray (20), and yoda (20). all probe sets were characterized by probe binding strength (pb), probe self-folding (pp), target region accessibility (pa) and positional labelling effects (pl). for this assessment, […]


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YODA institution(s)
Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA, USA
YODA funding source(s)
Supported by DoD grant (DAAD 13-02-C-0018).

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