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Bi-dimensional scaling map (BDS-Map): an approach for building large genetic maps
S Goldberg1, P Ferrand, N Q Nguyen
1Centre de Bioinformatique, INSERM U 155, Paris, France.
Computer Applications in the Biosciences : CABIOS
|November 21, 1997
Summary
This study introduces Bi-Dimensional Scaling Map (BDS-Map), a novel approach for genetic map construction. BDS-Map globally optimizes marker order and distances, overcoming limitations of traditional methods.
Area of Science:
- Genetics
- Bioinformatics
- Computational Biology
Background:
- Traditional genetic mapping divides markers into linkage groups, providing local orders.
- Existing methods face limitations in handling large marker sets and global order inference.
Purpose of the Study:
- To define a new strategy for genetic map construction that considers the entire marker set globally.
- To introduce and validate the Bi-Dimensional Scaling Map (BDS-Map) approach.
Main Methods:
- The BDS-Map approach projects markers into an additional orthogonal dimension.
- It utilizes dynamical forces derived from two-point analysis to optimize marker spatial locations.
- The method is tested on real genetic data and simulated datasets.
Main Results:
- BDS-Map infers marker orders and distances within genetic maps.
- The approach was successfully applied to real data with 16 and 70 markers.
- Efficiency was demonstrated on simulated data comprising 50 maps with 70 markers each.
Conclusions:
- BDS-Map offers a global strategy for genetic map construction.
- This method addresses limitations of traditional, localized approaches.
- The approach provides an efficient way to infer marker order and distances.