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Figure 4 | BMC Medical Genomics

Figure 4

From: Pathway-based outlier method reveals heterogeneous genomic structure of autism in blood transcriptome

Figure 4

Analysis flow chart. In brief, the steps of the method were: 1) project samples onto the principal components (PC) of pathway subspaces, 2) calculate the 1-dimensional Mahalanobis distance distribution of samples in the PC space of each pathway, 3) classify samples as “outliers” or “non-outliers” in each pathway based on the 97.5th percentile of the chi-squared distribution, 4) employ Fisher’s exact test to identify pathways that are specifically enriched for case or control outliers, using the False Discovery Rate (FDR) q-value of Storey and Tibshirani to correct for multiple hypothesis testing [88], 5) for each subgroup of samples corresponding to the outliers in a candidate pathway, perform standard differential expression analysis to determine the genes responsible for the grouping.

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