Statistical Analysis of Next Generation Sequencing Data by Somnath Datta & Dan Nettleton

Author:Somnath Datta & Dan Nettleton
Language: eng
Format: epub
Publisher: Springer International Publishing, Cham

10.4 Case Studies

In this section, we apply the clustering methods described in Sect. 10.3 to a maize RNA-seq dataset generated by Li et al. [19]. This dataset quantifies transcript abundance of four segments along a leaf developmental gradient, with two biological replicates for each segment. The total number of genes detected in this experiment is more than 50,000. For the purpose of cluster analysis, we only use the list of 12,631 genes that were identified as differentially expressed among the four segments using generalized linear model analysis based on the negative binomial distribution [19, 37].

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