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Chapter
Isoform Expression Analysis Based on RNA-seq Data
The development of novel high-throughput DNA sequencing methods has provided a powerful method for both map** and quantifying transcriptomes. This method, termed RNA-seq (RNA sequencing), has advantages over...
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Chapter
Linkage Analysis of Qualitative Traits
Linkage analysis of pedigree data is a powerful tool for map** genomic regions that are likely to contain genes influencing human diseases. In this chapter, we will first introduce concepts and rationale of ...
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Chapter
DNA-Chip Analyzer (dChip)
DNA-Chip Analyzer (dChip) is a software package implementing model-based expression analysis of oligonucleotide arrays and several high-level analysis procedures. The model-based approach allows probe-level an...
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Chapter
Computational Analysis of Leukemia Microarray Expression Data Using the GA/KNN Method
We recently developed a multivariate method that selects a subset of discriminative genes for sample classification based on gene expression data. The method combines a search tool, a genetic algorithm (GA), a...
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Chapter
Evaluation of Current Methods of Testing Differential Gene expression and Beyond
One frequent question in the study of microarrys concerns the number of replicates required to obtain vaild data. We used the T-matrix data from the NCI-60 cancer cell lines dataset to investigate this questio...
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Chapter
How Many Genes are Needed for a Discriminant Microarray Data Analysis
The analysis of the leukemia data from Whitehead/MIT group is a discriminant analysis (also called a supervised learning). Among thousands of genes whose expression levels are measured, not all are needed for ...
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Chapter
Classical Statistical Approaches to Molecular Classification of Cancer from Gene Expression Profiling
Recent literature regarding microarray technology has focused on the need to incorporate classical statistical practices in experimental design in order to utilize more robust, classical statistical methodolog...
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Chapter
Correlation of DNA fragment sizes within loci in the presence of non-detectable alleles
At present most forensic databases of DNA profiling of individuals consist of DNA fragment sizes measured from Southern blot restriction fragment length polymorphism (RFLP) analysis. Statistical studies of the...