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Table 2 Summary of significant pathways identified

From: Pathway analysis comparison using Crohn's disease genome wide association studies

Pathway

Method

IL23R status

Dataset

IL-9 Signaling

RS

in

WTCCC, J, NJ

IL-2 Receptor Beta Chain in T cell Activation

RS

in

WTCCC, J, NJ

Activation of Csk by cAMP-dependent Protein Kinase Inhibits Signaling through the T Cell Receptor pathway

RS,BIN

in, out, cond

WTCCC

Ahr Signal Transduction Pathway

RS

in, out, cond

WTCCC

Antigen Dependent B Cell Activation pathway

RS

in, out, cond

WTCCC

Bystander B Cell Activation pathway

RS

in, out, cond

WTCCC

Cytokines and Inflammatory Response pathway

RS, BIN

in, out, cond

WTCCC

Erythropoietin mediated neuroprotection through NF-kB pathway

RS

in, out, cond

WTCCC

Hypoxia-Inducible Factor in the Cardiovascular System pathway

RS

in, out, cond

WTCCC

IL 4 signaling pathway

RS

in, out, cond

WTCCC

IL 5 Signaling Pathway

RS

in, out, cond

WTCCC

IL12 and Stat4 Dependent Signaling Pathway in Th1 Development pathway

RS

in, out, cond

WTCCC

IL22 Soluble Receptor Signaling Pathway

RS

in, out, cond

WTCCC

Lck and Fyn tyrosine kinases in initiation of TCR Activation pathway

RS, BIN

in, out, cond

WTCCC

NO2-dependent IL 12 Pathway in NK cells pathway

RS, BIN

in, out, cond

WTCCC

Selective expression of chemokine receptors during T-cell polarization pathway

RS

in, out, cond

WTCCC

Glycerolipid metabolism

RS

in, out, cond

WTCCC

Glycerophospholipid metabolism

RS

in, out, cond

WTCCC

Adipogenesis Human

RS, BIN

in, out, cond

WTCCC

IL-4 signaling pathway

RS, BIN

in, out, cond

WTCCC

Kit Receptor Signaling Pathway

RS, BIN

in, out, cond

WTCCC

TPO Signaling Pathway

RS

in, out, cond

WTCCC

Role of Erk5 in Neuronal Survival pathway

BIN

in, out, cond

WTCCC

Transcription factor CREB and its extracellular signals pathway

BIN

in, out, cond

WTCCC

Acetylcholine Synthesis

BIN

in, out, cond

WTCCC

Glycosphingolipid biosynthesis

RS

in, out, cond

J

Deregulation of CDK5 in Alzheimers Disease pathway

RS

in, out, cond

NJ

  1. The table summarizes the significant pathways identified in the three datasets, Wellcome trust Case-Control Consortium (WTCCC), Jewish (J), non-Jewish (NJ), that were significant using either method, Random Set (RS) or Binomial (BIN). The table also notes how IL23R was treated in the enrichment analysis, included (in), excluded (out), or conditioned upon (cond). The complete list of significant pathways are found in Additional Tables 1 and 3.