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Alcohol is one of the major threats to health in United States. With the emerging of next-generation sequencing technology, the association between alcohol preference and the variants and expression of genes has been investigated. However, the roles of long non-coding RNAs (lncRNA) in alcohol preference remains unclear. In this study, we identified 37 novel lncRNAs that differentially expressed across...
We report an integrative bioinformatic platform for next-generation sequencing data analysis, xIP-seq, which is built on GenePattern package. The purpose for this tool is to provide analysis pipelines for data derived from next-generation sequencing following a variety of experiments using immunoprecipitation, such as ChIP-seq (chromatin immunoprecipitation following sequencing) for analysis of DNA...
Here we describe a model-based approach to predict cis-acting RNA elements which regulate tissue-specific alternative splicing. The model facilitates the identification of cis-acting elements (or CAE) and the estimation of their activities, considering the splicing variants between two different tissues as the combinatorial functions of multiple elements. We implement this model on a set of differentially...
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