Y[subscript MAP]: a pipeline for visualization of copy number variation and loss of heterozygosity in eukaryotic pathogens
Author(s)Abbey, Darren A.; Funt, Jason; Lurie-Weinberger, Mor N.; Thompson, Dawn A.; Regev, Aviv; Myers, Chad L.; Berman, Judith; ... Show more Show less
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The design of effective antimicrobial therapies for serious eukaryotic pathogens requires a clear understanding of their highly variable genomes. To facilitate analysis of copy number variations, single nucleotide polymorphisms and loss of heterozygosity events in these pathogens, we developed a pipeline for analyzing diverse genome-scale datasets from microarray, deep sequencing, and restriction site associated DNA sequence experiments for clinical and laboratory strains of Candida albicans, the most prevalent human fungal pathogen. The Y[subscript MAP] pipeline (http://lovelace.cs.umn.edu/Ymap/) automatically illustrates genome-wide information in a single intuitive figure and is readily modified for the analysis of other pathogens with small genomes.
DepartmentMassachusetts Institute of Technology. Department of Biology
BioMed Central Ltd
Abbey, Darren A, Jason Funt, Mor N Lurie-Weinberger, Dawn A Thompson, Aviv Regev, Chad L Myers, and Judith Berman. “Y[subscript MAP]: a Pipeline for Visualization of Copy Number Variation and Loss of Heterozygosity in Eukaryotic Pathogens.” Genome Medicine 6, no. 11 (2014): 100.
Final published version