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OligoEvaluator specifications


Unique identifier OMICS_02353
Name OligoEvaluator
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

OligoEvaluator citations


Immunoprotective potential of BamA, the outer membrane protein assembly factor, against MDR Acinetobacter baumannii

Sci Rep
PMCID: 5622086
PMID: 28963492
DOI: 10.1038/s41598-017-12789-3

[…] Chromosomal DNA of A. baumannii ATCC 19606 was isolated and used as template for PCR. Primers were designed by online tool ‘OligoEvaluator™’ for BamA amplification having BamHI and XhoI restriction sites in forward (5′- ATAGGATCCTGTGGTGGAGGAAGTT-3′) and reverse (5′- TCACTCGAGTTATTTTGTCTTAATTTGATAACAAT-3) primers respective […]


Revealing enterovirus infection in chronic human disorders: An integrated diagnostic approach

Sci Rep
PMCID: 5504018
PMID: 28694527
DOI: 10.1038/s41598-017-04993-y

[…] ith the help of: CLC bio Main Workbench 7.7 (Qiagen Bioinformatics, Aarhus, Denmark), Blastn and Primer-Blast (NCBI), Clustal Omega (EMBL), PrimerQuest (Integrated DNA Technologies, Leuven, Belgium), Oligoevaluator (Sigma-Aldrich), FigTree v1.4.3 (Andrew Rambaut, University of Edinburgh). Statistical analysis was performed using Prism (GraphPad Software, La Jolla, CA). Qualitative variables defini […]


Development and application of a TaqMan single nucleotide polymorphism genotyping assay to study infectious laryngotracheitis virus recombination in the natural host

PLoS One
PMCID: 5370143
PMID: 28350819
DOI: 10.1371/journal.pone.0174590

[…] NPs, respectively (). In silico examination of the probes and primers was performed using the oligo evaluator feature within the RealTimeDesign software (https://www.biosearchtech.com/ProbeITy/design/OligoEvaluator.aspx).For the TaqMan PCR assay, DNA extracted from pure laboratory stocks of CSW-1 and V1-99 ILTV were used as control samples using three 10-fold dilutions starting from 1x105 genome c […]


Candidate pheromone receptors of codling moth Cydia pomonella respond to pheromones and kairomones

Sci Rep
PMCID: 5259778
PMID: 28117454
DOI: 10.1038/srep41105

[…] ripted from antennal RNA using the SMARTer kit (Clontech, Mountain View, CA, USA). Primer sequences were designed using existing contig data as reference, and thermodynamical features were checked by OligoEvaluator (Sigma Genosys, http://www.oligoevaluator.com/). Putative oligodimerization was checked by OligoAnalyzer 3.1 (Integrated DNA Technologies, http://eu.idtdna.com/calc/analyzer), and melti […]


A Multigenic Network of ARGONAUTE4 Clade Members Controls Early Megaspore Formation in Arabidopsis

PMCID: 5105840
PMID: 27591749
DOI: 10.1534/genetics.116.188151

[…] s synthesized from 1 µg of total RNA, using oligo dT and SuperScript reverse transcriptase II (Invitrogen). Primers for PCR were designed using the online program Primer 3 (v.0.4.0) and verified with OligoEvaluator (Sigma Chemical, St. Louis, MO) to discard dimer structure formation. PCR efficiencies of the target and reference genes were determined by generating standard curves, based on serial d […]


TRPA5, an Ankyrin Subfamily Insect TRP Channel, is Expressed in Antennae of Cydia pomonella (Lepidoptera: Tortricidae) in Multiple Splice Variants

PMCID: 5026476
PMID: 27638948
DOI: 10.1093/jisesa/iew072

[…] Ter kit (Clontech). Amplifications were conducted according to the recommended protocols. Primers were designed by hand using existing contig data as reference. Thermodynamic features were checked by OligoEvaluator (Sygma Genosys, http://www.oligoevaluator.com), and putative oligodimerization was checked by OligoAnalyzer 3.1 (Integrated DNA Technologies, http://eu.idtdna.com/calc/analyzer). Primer […]


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