Quantitative sequence-activity models (QSAM)—tools for sequence design
Open Access
- 1 January 1993
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 21 (3) , 733-739
- https://doi.org/10.1093/nar/21.3.733
Abstract
Models have been developed that allow the biological activity of a DNA segment to be altered in a desired direction. Partial least squares projections to latent structures (PLS) was used to establish a quantitative model between a numerical description of 68 bp fragments of 25 E.coli. promoters and their corresponding quantitative measure of in vivo strength. This quantitative sequence-activity model (QSAM) was used to generate two 68 bp fragments predicted to be more potent promoters than any of those on which the model originally was based. The optimized structures were experimentally verified to be strong promoters in vivo.Keywords
This publication has 19 references indexed in Scilit:
- Is molecular biology yet a science?Nature, 1992
- Neural network detects errors in the assignment of mRNA splice sitesNucleic Acids Research, 1990
- Transcriptionin vivodirected by consensus sequences ofE.colipromoters: their context heavily affects efficiencies and start sitesNucleic Acids Research, 1990
- Promoters largely determine the efficiency of repressor action.Proceedings of the National Academy of Sciences, 1988
- PL of coliphage lambda: an alternative solution for an efficient promoter.The EMBO Journal, 1988
- Analysis of E.Coli Pormoter sequencesNucleic Acids Research, 1987
- Rigorous pattern-recognition methods for DNA sequencesJournal of Molecular Biology, 1985
- Escherichia colipromoter sequences predictin vitroRNA polymerase selectivityNucleic Acids Research, 1984
- Computer methods to locate signals in nucleic acid sequencesNucleic Acids Research, 1984
- Synthesis of a model promoter for gene expression in Escherichia coli.1980