Table 1.
Enrichment of selected gene sets and known NF-κB target genes in esophageal epithelium with duodenal or mixed reflux compared with control mice
| Duodenal Reflux | Mixed Reflux | |
|---|---|---|
| Canonical pathway | CP89: cytokine-cytokine receptor interaction | CP89: cytokine-cytokine receptor interaction |
| CP89: cytokine-cytokine receptor interaction | CP89: cytokine-cytokine receptor interaction | |
| CP122: TLR signaling pathway | CP122: TLR signaling pathway | |
| CP237: cytokine pathway | CP129: TCR signaling pathway | |
| CP238: inflammation pathway | CP237: cytokine pathway | |
| CP283: IL-10 pathway | CP238: inflammation pathway | |
| CP702: signaling in immunity | CP283: IL-10 pathway | |
| CP872: MMP-cytokine connection | CP408: activated TLR4 signaling | |
| CP446: chemokine receptors bind chemokine | CP838: TNF pathway | |
| CP391: TNFR2 pathway | CP872: MMP-cytokine connection | |
| CP312: NF-κB pathway | ||
| Gene ontology | GO320: regulation of cytokine secretion | GO335: positive regulation of immune system process |
| GO513: cytokine production | GO419: positive regulation of cytokine biosynthetic process | |
| GO593: inflammation response | GO513: cytokine production | |
| GO672: regulation of cytokine production | GO578: leukocyte activation | |
| GO975: cytokine secretion | GO584: adaptive immune response | |
| GO1233: chemokine activity | GO672: regulation of cytokine production | |
| GO1268: chemokine receptor binding | GO815: T cell activation | |
| GO500: regulation of T cell activation | GO882: regulation of lymphocyte activation | |
| GO578: leukocyte activation | GO918: innate immune response | |
| GO583: adaptive immune response | GO926: lymphocyte activation | |
| GO918: innate immune response | GO1034: positive regulation of cytokine production | |
| GO714: positive regulation of T cell activation | GO1147: IL binding | |
| GO882: regulation of lymphocyte activation | GO1422: cytokine binding | |
| GO1443: cytokine activity | ||
| Transcription factor | TF30: NF-κB | TF30: NF-κB |
| Known NF-κB target genes | ||
| Upregulated | Cxcl5, Cxcl1, Apoc3, Ccl4, Sele, Il12b, Ltf, Mmp3, Lcn2, Il6, Csf3, Il1b, Cd3 g, Saa3, Il11, Gad1, Afp, Ptgs2, Self, Pthlh, Slfn2, Pglyrp1, Lta, Ifng, Dio2, Ccl20, Rdh7, Cd38, Tnfaip3, Hif1a, Tnfsf13b, Btk, Tacr1, Cxcl9, Klra1, Il23a, Tnf, Nfkbi2, Mx1, Bir1, Pian, Cd80, Igfbp1, Saa1, Tff3 | Il1b, Ccl4 |
| Downregulated | Bdnf, Igfbp2, Sh3bgrl, Hoxa9, Fgfr, BclII, Bmp4, Ptgis, Gclc | — |
CP, canonical pathway; GO, gene ontology; TF, transcription factor; TLR, Toll-like receptor; TCR, T cell receptor; MMP, matrix metalloproteinase; TNFR2, TNF receptor type 2.