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SAM: a system for iteratively building marker maps

C Soderlund¹, I Dunham

¹Sanger Centre, Cambridge, UK. cari@sanger.ac.uk

Computer Applications in the Biosciences : CABIOS

|December 1, 1995

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The System for Assembling Markers (SAM) facilitates iterative ordering of genetic markers using user input and incomplete data. It supports map refinement and experimental design for complex genomic projects.

Area of Science:

Genomics
Bioinformatics
Computational Biology

Background:

Genetic marker ordering is crucial for genome mapping.
Existing methods struggle with incomplete and uncertain data.
Iterative refinement of genetic maps is essential for accuracy.

Purpose of the Study:

To introduce the System for Assembling Markers (SAM), a man-machine problem-solving system.
To support iterative ordering and refinement of genetic marker maps.
To handle incomplete and uncertain data in map construction.

Main Methods:

User-directed, iterative map assembly using interactive functions.
Inputting clone and marker data for map construction.
Graphical display and saving of assembled maps.

Related Experiment Videos

Editing input data and assembled maps for refinement.

Main Results:

SAM successfully supports the iterative ordering of genetic markers.
The system aids in updating and refining partially assembled maps with new data.
SAM facilitates the building of complex genetic maps, such as the YAC map of human chromosome 22.

Conclusions:

SAM provides a flexible framework for genetic map construction.
The system's interactive nature and data handling capabilities enhance map accuracy.
SAM is a valuable tool for genomic research laboratories, aiding in data integration and map completion.