Statistically controlled identification of differentially expressed genes in one-to-one cell line comparisons of the CMAP database for drug repositioning

@inproceedings{He2017StatisticallyCI,
  title={Statistically controlled identification of differentially expressed genes in one-to-one cell line comparisons of the CMAP database for drug repositioning},
  author={Jun He and Haidan Yan and Hao Cai and Xiangyu Li and Qingzhou Guan and Weicheng Zheng and Rou Chen and Huaping Liu and Kai Song and Zheng Guo and Xianlong Wang},
  booktitle={Journal of Translational Medicine},
  year={2017}
}
BackgroundThe Connectivity Map (CMAP) database, an important public data source for drug repositioning, archives gene expression profiles from cancer cell lines treated with and without bioactive small molecules. However, there are only one or two technical replicates for each cell line under one treatment condition. For such small-scale data, current fold-changes-based methods lack statistical control in identifying differentially expressed genes (DEGs) in treated cells. Especially, one-to-one… CONTINUE READING
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