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. 2007 Sep-Oct;13(9-10):495–508. doi: 10.2119/2007-00065.Shanley

Table 3A.

Gene Networks Upregulated Uniquely on Day One

Network and Central Node1 Ingenuity Annotations2 Panther Classifications3

  • Pathway (P value)

  • Biological Process (P value)

  • Molecular Function (P value)

 D.A.V.I.D. Functional Annotation4

  • Category

  • Term

  • P value
Network 1 MAPK14

  • Inflammatory disease

  • Infectious disease

  • Cell-cell signaling

  • Oxidative stress response (3.3E-8)

  • Immunity and defense (1.3E-12)

  • Protein kinase (5.3E-5)

  • GOTERM_BP_ALL

  • Response to pest, pathogen or parasite

  • 1.9E-14
Network 2 STAT3

  • Immune response

  • Cellular movement

  • Hematologic system development

  • Inflammation mediated by chemokine and cytokine signaling (2.2E-7)

  • Immunity and defense (2.6E-13)

  • Cytokine receptor (1.8E-9)

  • SP_PIR_KEYWORDS

  • Signal

  • 6.6E-10
Network 3 LYN

  • Cell-cell signaling

  • Tissue morphology

  • Cellular movement

  • PDGF signaling pathway (1.9E-7)

  • Immunity and defense (1.4E-13)

  • Signaling molecule (8.0E-6)

  • GOTERM_BP_ALL

  • Response to wounding

  • 1.1E-7
1

”Central node” is a generic term to describe a given network. The term corresponds to the gene node in a given network having a high degree of connectivity to other nodes in the network. The term is not intended as an indication of network function. MAPK14, mitogen-activated protein kinase 14 (a.k.a. p38 MAP kinaseα); STAT3, signal transducer and activator of transcription 3; LYN, p53/p56 lyn kinase.

2

Based on Ingenuity Pathways Analysis annotations for a given network.

3

Based on Panther Classification System. The most significant pathway, biological process, or molecular function (based on P value) in the Panther Classification System is provided for a given network.

4

Based on the D.A.V.I.D. Functional Annotation Tool. The default parameters in D.A.V.I.D. were used to generate the most significant functional annotation (based on P value) for a given network.