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Full-Text Articles in Physical Sciences and Mathematics
Piecing The Puzzle Together: A Revisit To Transcript Reconstruction Problem In Rna-Seq, Yan Huang, Yin Hu, Jinze Liu
Piecing The Puzzle Together: A Revisit To Transcript Reconstruction Problem In Rna-Seq, Yan Huang, Yin Hu, Jinze Liu
Computer Science Faculty Publications
The advancement of RNA sequencing (RNA-seq) has provided an unprecedented opportunity to assess both the diversity and quantity of transcript isoforms in an mRNA transcriptome. In this paper, we revisit the computational problem of transcript reconstruction and quantification. Unlike existing methods which focus on how to explain the exons and splice variants detected by the reads with a set of isoforms, we aim at reconstructing transcripts by piecing the reads into individual effective transcript copies. Simultaneously, the quantity of each isoform is explicitly measured by the number of assembled effective copies, instead of estimated solely based on the collective read …
The Effects Of Using Chaotic Map On Improving The Performance Of Multiobjective Evolutionary Algorithms, Hui Lu, Xiaoteng Wang, Zongming Fei, Meikang Qiu
The Effects Of Using Chaotic Map On Improving The Performance Of Multiobjective Evolutionary Algorithms, Hui Lu, Xiaoteng Wang, Zongming Fei, Meikang Qiu
Computer Science Faculty Publications
Chaotic maps play an important role in improving evolutionary algorithms (EAs) for avoiding the local optima and speeding up the convergence. However, different chaotic maps in different phases have different effects on EAs. This paper focuses on exploring the effects of chaotic maps and giving comprehensive guidance for improving multiobjective evolutionary algorithms (MOEAs) by series of experiments. NSGA-II algorithm, a representative of MOEAs using the nondominated sorting and elitist strategy, is taken as the framework to study the effect of chaotic maps. Ten chaotic maps are applied in MOEAs in three phases, that is, initial population, crossover, and mutation operator. …