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Data Analysis of Multiplex Sequencing at SOLiD Platform:A Probabilistic Approach to Characterization and Reliability Increase

引用

American Journal of Molecular Biology 2018年第1期8卷 26-38页

作者： Fábio Manoel Franca Lobato Carlos Diego Damasceno Daniela Soares Leite Andrea Kelly Ribeiro-dos-Santos sylvain darnet Carlos Renato Francês Nandamudi Lankalapalli Vijaykumar Adamo Lima de Santana Engineering and Geoscience Institute Federal University of Western Pará (UFOPa) Santarém Brazil Technological Institute Federal University of Pará (UFPa) Belém Brazil Institute of Mathematical and Computer Sciences University of Sao Paulo (USP) Sao Carlos Brazil Department of Morphology and Physiological Sciences State University of Pará Marabá Brazil Biological Science Institute Federal University of Pará (UFPa) Belém Brazil Laboratory of Computing and Applied Mathematics National Institute for Space Research (INPE) Sao José Dos Campos Brazil

New sequencing technologies such as Illumina/Solexa, SOLiD/ABI, and 454/Roche, revolutionized the biological researches. In this context, the SOLiD platform has a particular sequencing type, known as multiplex run, which enables the sequencing of several samples in a single run. It implies in cost reduction and simplifies the analysis of related samples. Meanwhile, this sequencing type requires an additional filtering step to ensure the reliability of the results. Thus, we propose in this paper a probabilistic model which considers the intrinsic characteristics of each sequencing to characterize multiplex runs and filter low-quality data, increasing the data analysis reliability of multiplex sequencing performed on SOLiD. The results show that the proposed model proves to be satisfactory due to: 1) identification of faults in the sequencing process;2) adaptation and development of new protocols for sample preparation;3) the assignment of a degree of confidence to the data generated;and 4) guiding a filtering process, without discarding useful sequences in an arbitrary manner.

关键词： Probabilistic Modeling Health Informatics SOLiD Barcoding System Statistical Analysis Multiplex Sequencing

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