Abstract
We developed OligoCalc as a web-accessible, client-based computational engine for reporting DNA and RNA single-stranded and double-stranded properties, including molecular weight, solution concentration, melting temperature, estimated absorbance coefficients, inter-molecular self-complementarity estimation and intra-molecular hairpin loop formation. OligoCalc has a familiar 'calculator' look and feel, making it readily understandable and usable. OligoCalc incorporates three common methods for calculating oligonucleotide-melting temperatures, including a nearest-neighbor thermodynamic model for melting temperature. Since it first came online in 1997, there have been more than 900,000 accesses of OligoCalc from nearly 200,000 distinct hosts, excluding search engines. OligoCalc is available at http://basic.northwestern.edu/biotools/OligoCalc.html, with links to the full source code, usage patterns and statistics at that link as well.
Keywords
CalculatorOligonucleotideUSableBiologyComplementarity (molecular biology)Melting curve analysisComputer scienceTable (database)Computational biologyTheoretical computer scienceData miningDNAStatistical physicsPhysicsGeneticsWorld Wide WebPolymerase chain reactionGene
Affiliated Institutions
Related Publications
AGREE—Analytical GREEnness Metric Approach and Software
Green analytical chemistry focuses on making analytical procedures more environmentally benign and safer to humans. The amounts and toxicity of reagents, generated waste, energy...
Presentation of multivariate data for clinical use: The Framingham Study risk score functions
Abstract The Framingham Heart Study has been a leader in the development and dissemination of multivariable statistical models to estimate the risk of coronary heart disease. Th...
The AWK Programming Language
Preface. 1. An AWK Tutorial. Getting Started. Simple Output. Fancier Output. Selection. Computing with AWK. Control-Flow Statements. Arrays. A Handful of Useful One-liners. What...
Publication Info
- Year
- 2007
- Type
- article
- Volume
- 35
- Issue
- Web Server
- Pages
- W43-W46
- Citations
- 1296
- Access
- Closed
External Links
Social Impact
Altmetric
PlumX Metrics
Social media, news, blog, policy document mentions
Citation Metrics
1296
OpenAlex
Cite This
Warren A. Kibbe
(2007).
OligoCalc: an online oligonucleotide properties calculator.
Nucleic Acids Research
, 35
(Web Server)
, W43-W46.
https://doi.org/10.1093/nar/gkm234
Identifiers
- DOI
- 10.1093/nar/gkm234