title: Image processing for optical mapping.
abstract: Optical Mapping is an established single-molecule, whole-genome analysis system, which has been used to gain a comprehensive understanding of genomic structure and to study structural variation of complex genomes. A critical component of Optical Mapping system is the image processing module, which extracts single molecule restriction maps from image datasets of immobilized, restriction digested and fluorescently stained large DNA molecules. In this review, we describe robust and efficient image processing techniques to process these massive datasets and extract accurate restriction maps in the presence of noise, ambiguity and confounding artifacts. We also highlight a few applications of the Optical Mapping system.
authors.affiliation: Laboratory of Molecular and Computational Genomics, Department of Chemistry, Laboratory of Genetics and Biotechnology Center, University of Wisconsin, 425 Henry Mall, Madison, USA.
authors.forename: Prabu
authors.initials: P
authors.lastname: Ravindran
authors.affiliation: Laboratory of Molecular and Computational Genomics, Department of Chemistry, Laboratory of Genetics and Biotechnology Center, University of Wisconsin, 425 Henry Mall, Madison, USA.
authors.forename: Aditya
authors.initials: A
authors.lastname: Gupta
mesh_terms: D000818:Animals; D002874:Chromosome Mapping / Q000379:methods*; D016678:Genome; D006801:Humans; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D012680:Sensitivity and Specificity
keywords: Grouping; Image processing; Integrated fluorescence intensity; Optical mapping; Shortest path; Skeletonization; Tiling