Table 2.

Enriched pathways in CCDS analysis

	Human		Mouse
	Cross-alignment	Cross hybridization	Cross-alignment	Cross hybridization
1	Development: regulation of epithelial to mesenchymal (EMT)	Protein folding and maturation: POMC processing	Cell cycle: role of Nek in cell cycle regulation	Signal transduction: activin A signaling regulation
2	Cytoskeleton remodeling: Keratin filaments	Normal and pathological TGF-beta mediated regulation of cell proliferation	Cell cycle: the methaphase checkpoint	Transcription role of heterochromatin protein 1 (HP1) family in trancriptional silencing
3	Cardia hypertrophy NF-AT signaling in cardia hypertrophy	Signal transduction, Erk interactions: inhibition of Erk	Cytoskeleton remodeling: neurofilaments	Cytoskeleton remodeling: neurofilaments
4	Cell adhesion: gap junctions	Development: melaconyte development and pigmentation	ATP metabolism	Dvelopment: thrombopoietin regulated cell process
5	Cell adhesion: hestamine H1 receptor signaling in the interruption of cell barrier integrity	Cytoskeleton remodeling: TGF, WNT and cytoskeletal remodeling	Cell cycle: spindle assembly and chromosome separation	Neurophysiological process nNOS signaling in neronal synapases
6	Signal transduction: cAMP signaling	Develeopment A2A receptor signaling	dCTP/dUTP metabolism	Development: role of HDAC and calcium/calmodulin dependent kinase (CaMK) in control of skeletal of myogenesis
7	Immune response: MIF-neuroendocrine macrophage connector	Development transcription regulation of granulocyte development	Apoptosis and survival: DNA damage induced apoptosis	Protein folding: membrane trafficking and signal transduction of G-alpha heterotrimeic G-protein
8	Development transcription: regulation of grabulocyte development	Cytoskeleton remodeling Alpha-1A andrenergic recepto- dependent inhibition of PI3K	Transcription: androgen receptor nuclear signaling	Development: role of activin A in cell differentiation and proliferation
9	Cell adhesion: edothelial cell contacts by junctional mechanisms	Muscle contraction: relaxin signaling pathway	Neurophysiological process: ACM regulation of nerve impulse	Development: WNT5A signaling
10	Atherosclerosis: role of ZNF202 in regulation of expression of genes involved in Atherosclerosis	Immune response: lectin induced complement pathway	Development WNT signaling pathway	Development: PIP3 signaling in cardiac myocytes

Enriched GeneGo pathway maps for human and mouse. Gene lists for pathway analysis were obtained from the CCDS ID analysis for cross-hybridization (microarrays) and cross-alignment (RNA-Seq).