An Algorithm for Comparing Two-Dimensional Electrophoretic Gels, with Particular Reference to the Study of Mutation

Skolnick, M.; Neel, James V.

doi:10.1007/978-1-4615-8356-1_2

Cited by 14 publications

(2 citation statements)

References 56 publications

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“…Turning now to the potential applications of 2-D PAGE to monitoring, we have recently laid out in some detail not only the current laboratory procedures (Neel et al, 1984) but the current state of computer algorithms designed to read these gels with minimal operator intervention (Skolnick and Neel, 1986). The ability of this technique to detect electrophoretic variants has been adequately demonstrated (summary in Takahashi et al, 1987).…”

Section: Discussionmentioning

confidence: 99%

A pilot study of the use of placental cord blood samples in monitoring for mutational events

Neel

Mohrenweiser

Gershowitz

1988

Mutation Research/Genetic Toxicology

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A pilot study exploring the examination of placental cord blood samples for mutant proteins with one-dimensional electrophoretic techniques is described. Although technical advances are such that the techniques employed in this study are now partially superceded, the practical problems encountered in this study would be typical of any monitoring program of this type. No mutations altering electrophoretic mobility among a battery of 51 different locus products were encountered in a total of 277,747 locus tests. When these data are combined with similar data from other studies, the mutation rate for electromorphs becomes 0.34 X 10(-5)/locus/generation.

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Section: Discussionmentioning

confidence: 99%

A pilot study of the use of placental cord blood samples in monitoring for mutational events

Neel

Mohrenweiser

Gershowitz

1988

Mutation Research/Genetic Toxicology

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“…The visual comparison of the gel of a child with those of its parents, to detect attributes of a child's gel not present in either parent, i.e., a potential mutation, would be extremely demanding, the type of activity guaranteed to lead to a high turn-over rate in technicians. Fortunately, a computer algorithm we had earlier developed for the analysis of protein gels [Skolnick and Neel, 1986] proved suitable, with considerable modification, for the analysis of these complex DNA images [Asakawa et al, 1994]. Among the approximately 2,000 DNA fragments to be visualized on one of these preparations, we identified a subset of approximately 500 for which the coefficient of variation (CV) of spot intensity was Յ0.12, this reproducibility permitting the distinction between spots of normal intensity and spots with 50% intensity with high accuracy (i.e., two-fragment or one-fragment spots).…”

Section: Our Preliminary Studiesmentioning

confidence: 99%

A unified approach to the study of mutation, from bacteria to humans: Some potentialities of the new DNA technologies

Neel

1999

Environ. Mol. Mutagen.

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Database and search techniques for two‐dimensional gel protein data: A comparison of paradigms for exploratory data analysis and prospects for biological modeling

Lemkin

Lester²

1989

Electrophoresis

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Two-dimensional (2-D) polyacrylamide gel electrophoresis can detect thousands of polypeptides, separating them by apparent molecular weight (Mr) and isoelectric point (pI). Thus it provides a more realistic and global view of cellular genetic expression than any other technique. This technique has been useful for finding sets of key proteins of biological significance. However, a typical experiment with more than a few gels often results in an unwiedly data management problem. In this paper, the GELLAB-II system is discussed with respect to how data reduction and exploratory data analysis can be aided by computer data management and statistical search techniques. By encoding the gel patterns in a "three-dimensional" (3-D) database, an exploratory data analysis can be carried out in an environment that might be called a "spread sheet for 2-D gel protein data". From such databases, complex parametric network models of protein expression during events such as differentiation might be constructed. For this, 2-D gel databases must be able to include data from other domains external to the gel itself. Because of the increasing complexity of such databases, new tools are required to help manage this complexity. Two such tools, object-oriented databases and expert-system rule-based analysis, are discussed in this context. Comparisons are made between GELLAB and other 2-D gel database analysis systems to illustrate some of the analysis paradigms common to these systems and where this technology may be heading.

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An Algorithm for Comparing Two-Dimensional Electrophoretic Gels, with Particular Reference to the Study of Mutation

Cited by 14 publications

References 56 publications

A pilot study of the use of placental cord blood samples in monitoring for mutational events

A pilot study of the use of placental cord blood samples in monitoring for mutational events

A unified approach to the study of mutation, from bacteria to humans: Some potentialities of the new DNA technologies

Database and search techniques for two‐dimensional gel protein data: A comparison of paradigms for exploratory data analysis and prospects for biological modeling

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