Single-cell copy number variation detection |
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Authors: | Jiqiu Cheng Evelyne Vanneste Peter Konings Thierry Voet Joris R Vermeesch Yves Moreau |
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Affiliation: | (1) Department of Electrical Engineering, Esat-SCD, Katholieke Universiteit Leuven, Kasteelpark Arenberg 10, Leuven, 3001, Belgium;(2) IBBT-K.U.Leuven Future Health Department, Kasteelpark Arenberg 10, Leuven, 3001, Belgium;(3) Center for Human Genetics, Katholieke Universiteit Leuven, Herestraat 49, Leuven, 3000, Belgium |
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Abstract: | Detection of chromosomal aberrations from a single cell by array comparative genomic hybridization (single-cell array CGH), instead of from a population of cells, is an emerging technique. However, such detection is challenging because of the genome artifacts and the DNA amplification process inherent to the single cell approach. Current normalization algorithms result in inaccurate aberration detection for single-cell data. We propose a normalization method based on channel, genome composition and recurrent genome artifact corrections. We demonstrate that the proposed channel clone normalization significantly improves the copy number variation detection in both simulated and real single-cell array CGH data. |
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