Comparison of Mouse Data to Human Datasets 3/1/16

Mouse Dataset 452 genes DE in tumor vs. liver (p<0.01)

Heat Map Tumor v. Liver

Mouse Eigengene (452 DE genes)

Mouse v. Human GSE63898: 228 tumor samples, 168 cirrhosis samples (not matched) – 5514 de genes in tumor v. cirrhosis – 198 genes de in mouse and human datasets (p<0.01) GSE62232: 81 tumor samples, 10 normal liver (not matched) – 6148 de genes in tumor v. liver (human) – 158 genes de in mouse and human data sets (p<0.01) 105 genes in common between the two sets

Pathways for Genes in DE in mouse and both human data sets

GSE HCC 179 Cirrhosis

GSE63898

Module genes

Module 15 KEGG Pathways: Polyphyrin and chlorophyll metabolism Base excision repair SNARE interactions in vesicular transport GO Terms: Cellular response to zinc ion Cellular response to cadmium ion Cellular response to metal ion

Module genes

Module 18 KEGG Pathways: Cell Adhesion Molecules Gastric acid secretion Bile secretion ECM-receptor interaction Prostate Cancer Wnt signaling

Module 15 Eigengenes for Mouse

Module 15 Projected on Mouse

Module 18 Eigengenes for Mouse

Module 18 Projected on Mouse

Mouse Samples Clustered Based on Eigengene Values for Each Module

Eigengene Modules Clustered Based on Mouse Samples

Module 5

438 genes Module 5

KEGG Pathways: Fatty acid degradation Valine, leucine, isoleucine degradation PPAR signaling pathways Propanoate metabolism Cyp P450 Metabolsim of xenobiotics Beta-Alanine metabolism Trypotophan metabolism Alanine, aspartate, and glutamate metabolism Butanoate metabolism Glyoxylate and dicarboxylate metabolism Lysine degradation Peroxisome Glycine, serine, threonine metabolism Arginine, proline metabolism Tyrosine metabolism Retinol metabolism Etc.

GSE HCC Samples 10 Normal Liver

Modules Samples

Module 5

Module 5 Eigengenes for Mouse

Module 5 Projected on Mouse 652 Genes

Module 5 KEGG Pathways: mRNA surveillance pathway Glycosylphosphatidylinositol (GPI)-anchor biosynthesis Protein processing in ER N-glycan biosynthesis Lysine degradation RNA transport Pyrimidine metabolism

Module 14 Eigengenes for Mouse

Mouse Samples Clustered Based on Eigengene Values for Each Module

154 genes Module 14 Projected on Mouse

Module 14 KEGG Pathways: Ameobiasis Focal adhesion Pathways in cancer ECM-receptor interaction Small cell lung cancer Gap junction Melanoma MAPK signaling pathways Protein digestion and absorption Leukocyte transendothelial migration Vascular smooth muscle contraction B cell receptor signaling pathway Cell adhesion molecules Regulation of actin cytoskeleton Hematopoietic cell lineage GO Terms: Cardiovascular system development Blood vessel development Angiogenesis Tissue development Cell migration Cell motility

Mouse Eigengene Projected on Human Datasets GSE63898 GSE62232