1C-12Back
Large-scale repetitive genome structure finding using optical mapping
*Claire Yik-Lok Chung [1][2], Ting-Fung Chan [2]
[1] Div. Genome Biol., Hokkaido Univ [2] School of Life Sci., Chinese Univ. of Hong Kong

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Optical mapping (OM) generates up to mega-base pairs long physical maps in a high throughput manner, and is advantageous in detecting large-scale genome repeats challenging to other data. However, currently repetitive genome structure detection on OM data often requires alignment to a high-quality genome reference, which may not be present at the time of data generation. De novo detection only resolves repeats with single-segment units. There is also a lack in effective visualization methods. A software called OMACASE is developed to detect large genome structures on OM data using unexpensive k-mer comparison and visualize the results.
keywords: Optical mapping, genomic structural variation, repetitive element

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Large-scale repetitive genome structure finding using optical mapping
Claire Yik-Lok Chung [1,2], Ting-Fung Chan [2]
[1] School Life Sci, Chinese Univ. Hong Kong [2] Hokkaido Univ.