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Full-Text Articles in Physical Sciences and Mathematics
Multivariate Models And Algorithms For Systems Biology, Lipi Rani Acharya
Multivariate Models And Algorithms For Systems Biology, Lipi Rani Acharya
University of New Orleans Theses and Dissertations
Rapid advances in high-throughput data acquisition technologies, such as microarraysand next-generation sequencing, have enabled the scientists to interrogate the expression levels of tens of thousands of genes simultaneously. However, challenges remain in developingeffective computational methods for analyzing data generated from such platforms. In thisdissertation, we address some of these challenges. We divide our work into two parts. Inthe first part, we present a suite of multivariate approaches for a reliable discovery of geneclusters, often interpreted as pathway components, from molecular profiling data with replicated measurements. We translate our goal into learning an optimal correlation structure from replicated complete and incomplete …
Computational Pipeline For Human Transcriptome Quantification Using Rna-Seq Data, Guorong Xu
Computational Pipeline For Human Transcriptome Quantification Using Rna-Seq Data, Guorong Xu
University of New Orleans Theses and Dissertations
The main theme of this thesis research is concerned with developing a computational pipeline for processing Next-generation RNA sequencing (RNA-seq) data. RNA-seq experiments generate tens of millions of short reads for each DNA/RNA sample. The alignment of a large volume of short reads to a reference genome is a key step in NGS data analysis. Although storing alignment information in the Sequence Alignment/Map (SAM) or Binary SAM (BAM) format is now standard, biomedical researchers still have difficulty accessing useful information. In order to assist biomedical researchers to conveniently access essential information from NGS data files in SAM/BAM format, we have …