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Rapid and accurate identification of potentially interested pathways through the analysis of genome-wide expression profiles remains an important challenge in bioinformatics. Most existing methods are based on hypothesis testing, such as GSEA. These methods mainly focus on individual pathways and rank them based on their individual strengths. However, biological pathways often work together to function...
Causal structure discovery is an important problem in protein sequences and gene-gene interaction in gene expression data, which will reveal the elementary structure of the protein sequence and the gene-gene interaction by the expression level of genes within the cell. In this paper, we investigate the feature--based causal structure learning methods for protein sequence and gene expression data respectively...
The fast development of array technology has raised the density of oligonucleotide SNP arrays from 10 K and 50 K to 100 K and 500 K. However, methods for SNP genotyping have not been developed as fast. Most methods are based on sample-dependent multi-array training and may not be suitable for cross-laboratory studies and small sample studies, few use full information of array technology efficiently...
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