The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
A computer program for choosing optimal oligonudeotides for filter hybridization, sequencing and in vitro amplification of DNA
Open accessAbstract
A method is presented for choosing optimal oligodeoxyribonucleotides as probes for filter hybridization, primers for sequencing, or primers for DNA amplification. Three main factors that determine the quality of a probe are considered: stability of the duplex formed between the probe and target nucleic acid, specificity of the probe for the intended target sequence, and self-complementarity. DNA duplex stability calculations are based on the nearest-neighbor thermodynamic values determined by Breslauer et al. [Proc. Natl. Acad. Sci. U.S.A. (1986), 83: 3746]. Temperatures of duplex dissociation predicted by the method described here were within 0.4 degrees C of the values obtained experimentally for ten oligonucleotides. Calculations for specificity of the probe and its self-complementarity are based on a simple dynamic algorithm.
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Cites
Improved free-energy parameters for predictions of RNA duplex stability.
Freier, S. M., Kierzek, R., Jaeger, J. A., Sugimoto, N., Caruthers, M. H., Neilson, T., & Turner, D. H. (1986) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.83.24.9373 · Cited by 1,470
Cited by
Castets, F., Bartoli, M., Barnier, J. V., Baillat, G., Salin, P., Moqrich, A., Bourgeois, J. P., Denizot, F., Rougon, G., Calothy, G., et al. (1996) · The Journal of Cell Biology · doi:10.1083/jcb.134.4.1051 · Cited by 129
Philippe, R., Courtois, B., McNally, K. L., Mournet, P., El-Malki, R., Le Paslier, M. C., Fabre, D., Billot, C., Brunel, D., Glaszmann, J.-C., et al. (2010) · Theoretical and Applied Genetics · doi:10.1007/s00122-010-1348-z · Cited by 85
Moqrich, A., Mattei, M. G., Bartoli, M., Rakitina, T., Baillat, G., Monneron, A., & Castets, F. (1998) · Genomics · doi:10.1006/geno.1998.5342 · Cited by 32
Metadata
- Authors
- Rychlik, W., & Rhoads, R. E.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 1989
- Volume
- 17
- Issue
- 21
- Pages
- 8543-8551
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2037762195
- Cited by
- 673
- References
- 1
- FWCI
- 6.70
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Rychlik, W., & Rhoads, R. E. (1989). A computer program for choosing optimal oligonudeotides for filter hybridization, sequencing and in vitro amplification of DNA. Nucleic Acids Research. https://doi.org/10.1093/nar/17.21.8543
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
