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. 2018 Jan 1:2018:bax101.
doi: 10.1093/database/bax101.

CellExpress: a comprehensive microarray-based cancer cell line and clinical sample gene expression analysis online system

Yi-Fang Lee  1 , Chien-Yueh Lee  1 , Liang-Chuan Lai  2 , Mong-Hsun Tsai  3   4 , Tzu-Pin Lu  5 , Eric Y Chuang  1   3
Affiliations

CellExpress: a comprehensive microarray-based cancer cell line and clinical sample gene expression analysis online system

Yi-Fang Lee et al. Database (Oxford). .

Abstract

http://cellexpress.cgm.ntu.edu.tw/.

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Figures

Figure 1.
Figure 1.
An overview of the CellExpress system. The gray block in the center shows the major functions of the CellExpress system. In the “Queried Information” block, several types of data are listed that can be searched in the CellExpress system. Both microarray and NGS data can be submitted. A total of five microarray datasets have been deposited into the CellExpress system.
Figure 2.
Figure 2.
Graphical user interface of the CellExpress system. All functions are listed in the top panel. Users can follow the steps in the instructions to complete the analysis procedures.
Figure 3.
Figure 3.
The gene expression of ESR1 in ER+ and ER− cell lines. (A) The ESR1 expression from nine probes in MCF7 and MDA-MB-468 cells. (B) The values of ESR1 expression using biological and statistical normalization methods.
Figure 4.
Figure 4.
PCA plots for similarity assessment. (A) The PCA plot of the gene expression levels in two different clones from the GA-10 cell line and other lymphoma cancer cell lines. (B) The MDA-MB-435 cell line is shown in yellow and its similarity to breast (red) and skin (blue) cancer cell lines from the SCLP dataset is easily compared. (C) The NCI-ADR-RES cell line is shown in yellow and its similarity to breast (red) versus ovary (blue) cancer cell lines from the NCI-60 dataset is easily compared.
Figure 5.
Figure 5.
Differentially expressed genes in the basal and luminal subtypes of breast cancer cell lines from the CCLE dataset. (A) The heatmap of differentially expressed genes in the two subtypes. (B) The PCA plot of the two subtypes. The five HS cell lines (HS274T, HS281T, HS343T, HS578T and HS742T) are shown in the green rectangle. (C) The gene-gene interaction network of the differentially expressed genes as analyzed by IPA.
Figure 6.
Figure 6.
The PCA plot of stem cells and other cell lines in brain. The samples of human fetal brain neural stem cells from GSE93385 are shown in red. The cell lines from the central nervous system (yellow) and autonomic ganglia (black) are illustrated using different colors.
See this image and copyright information in PMC

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