List of Supplementary Files - link.springer.com€¦ · Web viewSupplementary Table 1 (Word). Target genes of CDX1 and CDX2, and references used in creating the CDX1/CDX2 GenMapp

Wang, et al.Supplementary Materials Page 1 of 9

List of Supplementary Files

Supplementary File 1 (Excel). SAM, SAGE, and GSEA output files using the original

data of the Greenawalt, Hao, and Ostrowski datasets. The van Baal dataset was

analyzed with SAGE(Poisson).

Supplementary Table 1 (Word). Target genes of CDX1 and CDX2, and references used

in creating the CDX1/CDX2 GenMapp.

Supplementary Figure 1 (Powerpoint). Clustering of differentially expressed genes

(SAM/SAGE overlap gene list including 55 BE genes and 13 NE genes) in normal

esophagus and Barrett’s esophagus. (A) clustering with the Hao dataset; (B) clustering

with the Greenawalt dataset; and (C) clustering with the Ostrowski dataset.

Supplementary Figure 2 (Poweroint). Visualization of target genes of CDX1 and CDX2,

and the BMP/TGFβ signaling pathway with GenMapp, using the Ostrowski dataset

(oligonucleotide Microarray). Red boxes indicated genes that were up-regulated in BE,

while green boxes indicated genes that were down-regulated in BE. Uncolored boxes

denoted genes that were not found to be differentially expressed or were not present in

the dataset. Dashed boxes represented genes that had multiple spots on the microarray

showing differential expression. The central color of dashed boxes with multiple colors

denoted the expression pattern for the mode of spots, while the rim color denoted the

expression pattern of the minority of spots. (A) Differential expression of target genes of

CDX1 and CDX2; (B) Differential expression of genes of the BMP/TGFβ signaling

pathway.


Supplementary Table 1. Target genes of CDX1 and CDX2 a

Gene Symbol

Gene Name References Comments

CDX1ALPI alkaline phosphatase, intestinal 1 Columnar epithelial cellsAPOB apolipoprotein B (including Ag(x) antigen) 2B3GALT5 UDP-Gal:betaGlcNAc beta 1,3-

galactosyltransferase, polypeptide 53

CCL25 chemokine (C-C motif) ligand 25 4CCND1 cyclin D1 5, 6 Inhibited by CDX1CCND2 cyclin D2 5, 6 Inhibited by CDX1CLDN2 claudin 2 7 Columnar epithelial cellsFABP1 fatty acid binding protein 1, liver 8 Columnar epithelial cellsG6PC2 glucose-6-phosphatase, catalytic, 2 9GPA33 glycoprotein A33 (transmembrane) 10 Columnar epithelial cellsHLA-G major histocompatibility complex, class I, G 11HOXA7 homeobox A7 12 Transcription factorPCNA proliferating cell nuclear antigen 13REG3A regenerating islet-derived 3 alpha 14CDX2ACAT2 acetyl-Coenzyme A acetyltransferase 2 15 Columnar epithelial cellsACTG2 actin, gamma 2, smooth muscle, enteric 16, 17 Possible targetAKAP12 A kinase (PRKA) anchor protein (gravin) 12 18 Columnar epithelial cells; Possible

targetALPI alkaline phosphatase, intestinal 1 Columnar epithelial cellsAPC adenomatous polyposis coli 16, 17 Possible targetAPOB apolipoprotein B (including Ag(x) antigen) 2 Columnar epithelial cellsATOH1 atonal homolog 1 (Drosophila) 19 Transcription factor critical for goblet

cell developmentB3GALT5 UDP-Gal:betaGlcNAc beta 1,3-

galactosyltransferase, polypeptide 53 Columnar epithelial cells

CA1 carbonic anhydrase I 20 Columnar epithelial cellsCAPN9 calpain 9 18 Possible targetCCL25 chemokine (C-C motif) ligand 25 4CDH1 cadherin 1, type 1, E-cadherin (epithelial) 16, 17 Possible targetCDH17 cadherin 17, LI cadherin (liver-intestine) 18, 21 Columnar epithelial cellsCDX1 caudal type homeobox 1 17, 22 Transcription factorCHRNA5 cholinergic receptor, nicotinic, alpha 5 18 Possible targetCLDN2 claudin 2 7, 23 Columnar epithelial cellsCLU clusterin 24 Columnar epithelial cellsDHRS9 dehydrogenase/reductase (SDR family)

member 925

DPP4 dipeptidyl-peptidase 4 (CD26, adenosine deaminase complexing protein 2)

26

DTX1 deltex homolog 1 (Drosophila) 18 Possible targetE2F3 E2F transcription factor 3 18 Transcription factor; Possible targetFABP1 fatty acid binding protein 1, liver 8 Columnar epithelial cellsFABP6 fatty acid binding protein 6, ileal

(gastrotropin)27 Columnar epithelial cells

FURIN furin (paired basic amino acid cleaving enzyme)

28


GABARAP GABA(A) receptor-associated protein 18 Possible targetGCG glucagon 29-33 Enteroendocrine cellGJB1 gap junction protein, beta 1, 32kDa 34GUCY2C guanylate cyclase 2C (heat stable

enterotoxin receptor)35-37 Columnar epithelial cells

HBEGF heparin-binding EGF-like growth factor 38 Columnar epithelial cells; Possible target

HEPH hephaestin 39 Columnar epithelial cellsHLA-G major histocompatibility complex, class I, G 11HNRPM heterogeneous nuclear ribonucleoprotein

M18 Possible target

HOXA5 homeobox A5 40 Transcription factorHOXA9 homeobox A9 17, 41, 42 Transcription factorHOXA10 homeobox A10 43 Transcription factorHOXB8 homeobox B8 43HOXC8 homeobox C8 42, 44 Transcription factorHSD17B2 hydroxysteroid (17-beta) dehydrogenase 2 18 Columnar epithelial cells; Possible

targetIGFBP3 insulin-like growth factor binding protein 3 45IL2RB interleukin 2 receptor, beta 18 Possible targetINS insulin 46 Enteroendocrine cell

ITGB4 integrin, beta 4 16, 17 Possible targetKLF4 kruppel-like factor 4 (gut) 47 Transcription factor; essential for

goblet cell developmentLAMC2 laminin, gamma 2 16, 17 Possible targetLYPLA1 lysophospholipase I 48MUC2 mucin 2, oligomeric mucus/gel-forming 49, 50 Goblet cellsMUC4 mucin 4, cell surface associated 51 Goblet cellsNOX1 NADPH oxidase 1 52NOTCH3 Notch homolog 3 (Drosophila) 18 Possible targetNPR1 natriuretic peptide receptor A/guanylate

cyclase A (atrionatriuretic peptide receptor A)

18 Possible target

NR0B2 nuclear receptor subfamily 0, group B, member 2

18 Possible target

PLEC1 plectin 1, intermediate filament binding protein 500kDa

16, 17 Possible target

POMC proopiomelanocortin (adrenocorticotropin/ beta-lipotropin/ alpha-melanocyte stimulating hormone/ beta-melanocyte stimulating hormone/ beta-endorphin)

53-55

PTGS2 prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase)

56, 57 Inhibited by CDX2; Columnar epithelial cells

RAGE renal tumor antigen 58 Possible targetRETNLB resistin like beta 59 Goblet cellsRGS12 regulator of G-protein signaling 12 18 Possible targetS100G S100 calcium binding protein G 60, 61SI sucrase-isomaltase (alpha-glucosidase) 62 Columnar epithelial cellsSLC15A1 solute carrier family 15 (oligopeptide

transporter), member 163

SLC28A1 solute carrier family 28 (sodium-coupled 18 Possible target


nucleoside transporter), member 1SLC2A2 solute carrier family 2 (facilitated glucose

transporter), member 218 Possible target

SOX10 SRY (sex determining region Y)-box 10 18 Transcription factor; Possible targetSULT1A1 sulfotransferase family, cytosolic, 1A,

phenol-preferring, member 118 Possible target

TFF3 trefoil factor 3 (intestinal) 64 Goblet cellsTM4SF4 transmembrane 4 L six family member 4 18 Possible targetUGDH UDP-glucose dehydrogenase 18 Possible targetUGT1A8 UDP glucuronosyltransferase 1 family,

polypeptide A865

UGT1A10 UDP glucuronosyltransferase 1 family, polypeptide A10

65

UGT2B7 UDP glucuronosyltransferase 2 family, polypeptide B7

66

VDR vitamin D (1,25- dihydroxyvitamin D3) receptor

67

VIL1 villin 1 68 Columnar epithelial cellsZNF382 zinc finger protein 382 18 Possible targetZNF483 zinc finger protein 483 18 Possible targetATOH1AGR2 anterior gradient homolog 2 (Xenopus

laevis)69, 70 Columnar epithelial cells

BAMBI BMP and activin membrane-bound inhibitor homolog (Xenopus laevis)

69, 70

BARX1 BARX homeobox 1 69, 70CCK cholecystokinin 69, 70 Enteroendocrine cellsGFI1 growth factor independent 1 transcription

repressor69, 70

INSM1 insulinoma-associated 1 69, 70LYZ lysozyme (renal amyloidosis) 69, 70 Paneth cellsMMP7 matrix metallopeptidase 7 (matrilysin,

uterine)69, 70 Paneth cells

MSI2 musashi homolog 2 (Drosophila) 69, 70MUC2 mucin 2, oligomeric mucus/gel-forming 69, 70 Goblet cellsMUC5AC mucin 5AC, oligomeric mucus/gel-forming 71 Columnar epithelial cellsMUC6 mucin 6, oligomeric mucus/gel-forming 71NEUROD1 neurogenic differentiation 1 69, 70 Enteroendocrine cellsNEUROG3 neurogenin 3 69, 70 Enteroendocrine cellsNR2F6 nuclear receptor subfamily 2, group F,

member 672

NTS neurotensin 69, 70 Enteroendocrine cellsPYY peptide YY 69, 70 Enteroendocrine cellsRAB27A RAB27A, member RAS oncogene family 69, 70RAB27B RAB27B, member RAS oncogene family 69, 70SCT secretin 69, 70 Enteroendocrine cellsSPDEF SAM pointed domain containing ets

transcription factor69, 70, 73 Goblet cells

TFF3 trefoil factor 3 (intestinal) 69, 70 Goblet cells

a Target genes in this table refer to genes directly regulated by a transcription factor, or those indirectly regulated genes which were identified by microarray studies.


References of Supplementary Table 1

1. Alkhoury F, Malo MS, Mozumder M, Mostafa G, Hodin RA. Differential regulation of intestinal alkaline phosphatase gene expression by Cdx1 and Cdx2. Am J Physiol Gastrointest Liver Physiol. 2005; 289: G285-90.

2. Patterson AP, Chen Z, Rubin DC, Moucadel V, Iovanna JL, Brewer HB, Jr., et al. Developmental regulation of apolipoprotein B mRNA editing is an autonomous function of small intestine involving homeobox gene Cdx1. J Biol Chem. 2003; 278: 7600-6.

3. Isshiki S, Kudo T, Nishihara S, Ikehara Y, Togayachi A, Furuya A, et al. Lewis type 1 antigen synthase (beta3Gal-T5) is transcriptionally regulated by homeoproteins. J Biol Chem. 2003; 278: 36611-20.

4. Ericsson A, Kotarsky K, Svensson M, Sigvardsson M, Agace W. Functional characterization of the CCL25 promoter in small intestinal epithelial cells suggests a regulatory role for caudal-related homeobox (Cdx) transcription factors. J Immunol. 2006; 176: 3642-51.

5. Lynch J, Keller M, Guo RJ, Yang D, Traber P. Cdx1 inhibits the proliferation of human colon cancer cells by reducing cyclin D1 gene expression. Oncogene. 2003; 22: 6395-407.

6. Lynch J, Suh ER, Silberg DG, Rulyak S, Blanchard N, Traber PG. The caudal-related homeodomain protein Cdx1 inhibits proliferation of intestinal epithelial cells by down-regulation of D-type cyclins. J Biol Chem. 2000; 275: 4499-506.

7. Sakaguchi T, Gu X, Golden HM, Suh E, Rhoads DB, Reinecker HC. Cloning of the human claudin-2 5'-flanking region revealed a TATA-less promoter with conserved binding sites in mouse and human for caudal-related homeodomain proteins and hepatocyte nuclear factor-1alpha. J Biol Chem. 2002; 277: 21361-70.

8. Staloch LJ, Divine JK, Witten JT, Simon TC. C/EBP and Cdx family factors regulate liver fatty acid binding protein transgene expression in the small intestinal epithelium. Biochim Biophys Acta. 2005; 1731: 168-78.

9. Gautier-Stein A, Domon-Dell C, Calon A, Bady I, Freund JN, Mithieux G, et al. Differential regulation of the glucose-6-phosphatase TATA box by intestine-specific homeodomain proteins CDX1 and CDX2. Nucleic Acids Res. 2003; 31: 5238-46.

10. Johnstone CN, White SJ, Tebbutt NC, Clay FJ, Ernst M, Biggs WH, et al. Analysis of the regulation of the A33 antigen gene reveals intestine-specific mechanisms of gene expression. J Biol Chem. 2002; 277: 34531-9.

11. Soubeyran P, Mallo GV, Moucadel V, Dagorn JC, Iovanna JL. Overexpression of Cdx1 and Cdx2 homeogenes enhances expression of the HLA-I in HT-29 cells. Mol Cell Biol Res Commun. 2000; 3: 271-6.

12. Subramanian V, Meyer BI, Gruss P. Disruption of the murine homeobox gene Cdx1 affects axial skeletal identities by altering the mesodermal expression domains of Hox genes. Cell. 1995; 83: 641-53.

13. Oh EJ, Park JH, Cho M, Lee WJ, Choi YH, Yoo MA. The caudal-related homeodomain protein CDX1 activates proliferating cell nuclear antigen expression in hepatocellular and colorectal carcinoma cells. Int J Oncol. 2002; 20: 23-9.

14. Moucadel V, Soubeyran P, Vasseur S, Dusetti NJ, Dagorn JC, Iovanna JL. Cdx1 promotes cellular growth of epithelial intestinal cells through induction of the secretory protein PAP I. Eur J Cell Biol. 2001; 80: 156-63.


15. Song BL, Wang CH, Yao XM, Yang L, Zhang WJ, Wang ZZ, et al. Human acyl-CoA:cholesterol acyltransferase 2 gene expression in intestinal Caco-2 cells and in hepatocellular carcinoma. Biochem J. 2006; 394: 617-26.

16. Keller MS, Ezaki T, Guo RJ, Lynch JP. Cdx1 or Cdx2 expression activates E-cadherin-mediated cell-cell adhesion and compaction in human COLO 205 cells. Am J Physiol Gastrointest Liver Physiol. 2004; 287: G104-14.

17. Lorentz O, Duluc I, Arcangelis AD, Simon-Assmann P, Kedinger M, Freund JN. Key role of the Cdx2 homeobox gene in extracellular matrix-mediated intestinal cell differentiation. J Cell Biol. 1997; 139: 1553-65.

18. Uesaka T, Kageyama N, Watanabe H. Identifying target genes regulated downstream of Cdx2 by microarray analysis. J Mol Biol. 2004; 337: 647-60.

19. Mutoh H, Sakamoto H, Hayakawa H, Arao Y, Satoh K, Nokubi M, et al. The intestine-specific homeobox gene Cdx2 induces expression of the basic helix-loop-helix transcription factor Math1. Differentiation. 2006; 74: 313-21.

20. Drummond F, Sowden J, Morrison K, Edwards YH. The caudal-type homeobox protein Cdx-2 binds to the colon promoter of the carbonic anhydrase 1 gene. Eur J Biochem. 1996; 236: 670-81.

21. Hinoi T, Lucas PC, Kuick R, Hanash S, Cho KR, Fearon ER. CDX2 regulates liver intestine-cadherin expression in normal and malignant colon epithelium and intestinal metaplasia. Gastroenterology. 2002; 123: 1565-77.

22. Domon-Dell C, Freund JN. Stimulation of Cdx1 by oncogenic beta-catenin/Tcf4 in colon cancer cells; opposite effect of the CDX2 homeoprotein. FEBS Lett. 2002; 518: 83-7.

23. Mankertz J, Hillenbrand B, Tavalali S, Huber O, Fromm M, Schulzke JD. Functional crosstalk between Wnt signaling and Cdx-related transcriptional activation in the regulation of the claudin-2 promoter activity. Biochem Biophys Res Commun. 2004; 314: 1001-7.

24. Suh E, Wang Z, Swain GP, Tenniswood M, Traber PG. Clusterin gene transcription is activated by caudal-related homeobox genes in intestinal epithelium. Am J Physiol Gastrointest Liver Physiol. 2001; 280: G149-56.

25. Jette C, Peterson PW, Sandoval IT, Manos EJ, Hadley E, Ireland CM, et al. The tumor suppressor adenomatous polyposis coli and caudal related homeodomain protein regulate expression of retinol dehydrogenase L. J Biol Chem. 2004; 279: 34397-405.

26. Escaffit F, Pare F, Gauthier R, Rivard N, Boudreau F, Beaulieu JF. Cdx2 modulates proliferation in normal human intestinal epithelial crypt cells. Biochem Biophys Res Commun. 2006; 342: 66-72.

27. Barley NF, Taylor V, Shaw-Smith CJ, Chakravarty P, Howard A, Legon S, et al. Human ileal bile acid-binding protein promoter and the effects of CDX2. Biochim Biophys Acta. 2003; 1630: 138-43.

28. Gendron FP, Mongrain S, Laprise P, McMahon S, Dubois CM, Blais M, et al. The CDX2 transcription factor regulates furin expression during intestinal epithelial cell differentiation. Am J Physiol Gastrointest Liver Physiol. 2006; 290: G310-8.

29. Andersen FG, Heller RS, Petersen HV, Jensen J, Madsen OD, Serup P. Pax6 and Cdx2/3 form a functional complex on the rat glucagon gene promoter G1-element. FEBS Lett. 1999; 445: 306-10.

30. Liu T, Zhang X, So CK, Wang S, Wang P, Yan L, et al. Regulation of Cdx2 expression by promoter methylation, and effects of Cdx2 transfection on morphology and gene expression of human esophageal epithelial cells. Carcinogenesis. 2007; 28: 488-96.


31. Wang P, Liu T, Li Z, Ma X, Jin T. Redundant and synergistic effect of Cdx-2 and Brn-4 on regulating proglucagon gene expression. Endocrinology. 2006; 147: 1950-8.

32. Jin T, Drucker DJ. Activation of proglucagon gene transcription through a novel promoter element by the caudal-related homeodomain protein cdx-2/3. Mol Cell Biol. 1996; 16: 19-28.

33. Laser B, Meda P, Constant I, Philippe J. The caudal-related homeodomain protein Cdx-2/3 regulates glucagon gene expression in islet cells. J Biol Chem. 1996; 271: 28984-94.

34. Yamamoto T, Kojima T, Murata M, Takano K, Go M, Chiba H, et al. IL-1beta regulates expression of Cx32, occludin, and claudin-2 of rat hepatocytes via distinct signal transduction pathways. Exp Cell Res. 2004; 299: 427-41.

35. Debruyne PR, Witek M, Gong L, Birbe R, Chervoneva I, Jin T, et al. Bile acids induce ectopic expression of intestinal guanylyl cyclase C Through nuclear factor-kappaB and Cdx2 in human esophageal cells. Gastroenterology. 2006; 130: 1191-206.

36. Di Guglielmo MD, Park J, Schulz S, Waldman SA. Nucleotide requirements for CDX2 binding to the cis promoter element mediating intestine-specific expression of guanylyl cyclase C. FEBS Lett. 2001; 507: 128-32.

37. Park J, Schulz S, Waldman SA. Intestine-specific activity of the human guanylyl cyclase C promoter is regulated by Cdx2. Gastroenterology. 2000; 119: 89-96.

38. Uesaka T, Lu H, Katoh O, Watanabe H. Heparin-binding EGF-like growth factor gene transcription regulated by Cdx2 in the intestinal epithelium. Am J Physiol Gastrointest Liver Physiol. 2002; 283: G840-7.

39. Hinoi T, Gesina G, Akyol A, Kuick R, Hanash S, Giordano TJ, et al. CDX2-regulated expression of iron transport protein hephaestin in intestinal and colonic epithelium. Gastroenterology. 2005; 128: 946-61.

40. Tabaries S, Lapointe J, Besch T, Carter M, Woollard J, Tuggle CK, et al. Cdx protein interaction with Hoxa5 regulatory sequences contributes to Hoxa5 regional expression along the axial skeleton. Mol Cell Biol. 2005; 25: 1389-401.

41. Davidson AJ, Zon LI. The caudal-related homeobox genes cdx1a and cdx4 act redundantly to regulate hox gene expression and the formation of putative hematopoietic stem cells during zebrafish embryogenesis. Dev Biol. 2006; 292: 506-18.

42. Duluc I, Lorentz O, Fritsch C, Leberquier C, Kedinger M, Freund JN. Changing intestinal connective tissue interactions alters homeobox gene expression in epithelial cells. J Cell Sci. 1997; 110 ( Pt 11): 1317-24.

43. Rawat VP, Thoene S, Naidu VM, Arseni N, Heilmeier B, Metzeler K, et al. Overexpression of CDX2 perturbs HOX gene expression in murine progenitors depending on its N-terminal domain and is closely correlated with deregulated HOX gene expression in human acute myeloid leukemia. Blood. 2008; 111: 309-19.

44. Taylor JK, Levy T, Suh ER, Traber PG. Activation of enhancer elements by the homeobox gene Cdx2 is cell line specific. Nucleic Acids Res. 1997; 25: 2293-300.

45. Chun SY, Chen F, Washburn JG, MacDonald JW, Innes KL, Zhao R, et al. CDX2 promotes anchorage-independent growth by transcriptional repression of IGFBP-3. Oncogene. 2007; 26: 4725-9.

46. Zhao Y, Liu T, Zhang N, Yi F, Wang Q, Fantus IG, et al. Role of Cdx-2 in insulin and proglucagon gene expression: a study using the RIN-1056A cell line with an inducible gene expression system. J Endocrinol. 2005; 186: 179-92.


47. Dang DT, Mahatan CS, Dang LH, Agboola IA, Yang VW. Expression of the gut-enriched Kruppel-like factor (Kruppel-like factor 4) gene in the human colon cancer cell line RKO is dependent on CDX2. Oncogene. 2001; 20: 4884-90.

48. Taylor JK, Boll W, Levy T, Suh E, Siang S, Mantei N, et al. Comparison of intestinal phospholipase A/lysophospholipase and sucrase-isomaltase genes suggest a common structure for enterocyte-specific promoters. DNA Cell Biol. 1997; 16: 1419-28.

49. Mesquita P, Jonckheere N, Almeida R, Ducourouble MP, Serpa J, Silva E, et al. Human MUC2 mucin gene is transcriptionally regulated by Cdx homeodomain proteins in gastrointestinal carcinoma cell lines. J Biol Chem. 2003; 278: 51549-56.

50. Yamamoto H, Bai YQ, Yuasa Y. Homeodomain protein CDX2 regulates goblet-specific MUC2 gene expression. Biochem Biophys Res Commun. 2003; 300: 813-8.

51. Jonckheere N, Vincent A, Perrais M, Ducourouble MP, Male AK, Aubert JP, et al. The human mucin MUC4 is transcriptionally regulated by caudal-related homeobox, hepatocyte nuclear factors, forkhead box A, and GATA endodermal transcription factors in epithelial cancer cells. J Biol Chem. 2007; 282: 22638-50.

52. Valente AJ, Zhou Q, Lu Z, He W, Qiang M, Ma W, et al. Regulation of NOX1 expression by GATA, HNF-1alpha, and Cdx transcription factors. Free Radic Biol Med. 2008; 44: 430-43.

53. Fang R, Santiago NA, Olds LC, Sibley E. The homeodomain protein Cdx2 regulates lactase gene promoter activity during enterocyte differentiation. Gastroenterology. 2000; 118: 115-27.

54. Mitchelmore C, Troelsen JT, Spodsberg N, Sjostrom H, Noren O. Interaction between the homeodomain proteins Cdx2 and HNF1alpha mediates expression of the lactase-phlorizin hydrolase gene. Biochem J. 2000; 346 Pt 2: 529-35.

55. Kuranuki S, Mochizuki K, Tanaka T, Goda T. The possible roles of homeobox protein, Cdx-2 for the expression of LPH gene during postnatal development. Life Sci. 2007; 80: 795-9.

56. Kim SP, Park JW, Lee SH, Lim JH, Jang BC, Lee SH, et al. Homeodomain protein CDX2 regulates COX-2 expression in colorectal cancer. Biochem Biophys Res Commun. 2004; 315: 93-9.

57. Mutoh H, Hayakawa H, Sakamoto H, Sugano K. Homeobox protein CDX2 reduces Cox-2 transcription by inactivating the DNA-binding capacity of nuclear factor-kappaB. J Gastroenterol. 2007; 42: 719-29.

58. Uesaka T, Kageyama N. Cdx2 homeodomain protein regulates the expression of MOK, a member of the mitogen-activated protein kinase superfamily, in the intestinal epithelial cells. FEBS Lett. 2004; 573: 147-54.

59. Wang ML, Shin ME, Knight PA, Artis D, Silberg DG, Suh E, et al. Regulation of RELM/FIZZ isoform expression by Cdx2 in response to innate and adaptive immune stimulation in the intestine. Am J Physiol Gastrointest Liver Physiol. 2005; 288: G1074-83.

60. Colnot S, Romagnolo B, Lambert M, Cluzeaud F, Porteu A, Vandewalle A, et al. Intestinal expression of the calbindin-D9K gene in transgenic mice. Requirement for a Cdx2-binding site in a distal activator region. J Biol Chem. 1998; 273: 31939-46.

61. Wang L, Klopot A, Freund JN, Dowling LN, Krasinski SD, Fleet JC. Control of differentiation-induced calbindin-D9k gene expression in Caco-2 cells by cdx-2 and HNF-1alpha. Am J Physiol Gastrointest Liver Physiol. 2004; 287: G943-53.


62. Suh E, Chen L, Taylor J, Traber PG. A homeodomain protein related to caudal regulates intestine-specific gene transcription. Mol Cell Biol. 1994; 14: 7340-51.

63. Nduati V, Yan Y, Dalmasso G, Driss A, Sitaraman S, Merlin D. Leptin transcriptionally enhances peptide transporter (hPepT1) expression and activity via the cAMP-response element-binding protein and Cdx2 transcription factors. J Biol Chem. 2007; 282: 1359-73.

64. Shimada T, Koike T, Yamagata M, Yoneda M, Hiraishi H. Regulation of TFF3 expression by homeodomain protein CDX2. Regul Pept. 2007; 140: 81-7.

65. Gregory PA, Lewinsky RH, Gardner-Stephen DA, Mackenzie PI. Regulation of UDP glucuronosyltransferases in the gastrointestinal tract. Toxicol Appl Pharmacol. 2004; 199: 354-63.

66. Gregory PA, Gardner-Stephen DA, Rogers A, Michael MZ, Mackenzie PI. The caudal-related homeodomain protein Cdx2 and hepatocyte nuclear factor 1alpha cooperatively regulate the UDP-glucuronosyltransferase 2B7 gene promoter. Pharmacogenet Genomics. 2006; 16: 527-36.

67. Yamamoto H, Miyamoto K, Li B, Taketani Y, Kitano M, Inoue Y, et al. The caudal-related homeodomain protein Cdx-2 regulates vitamin D receptor gene expression in the small intestine. J Bone Miner Res. 1999; 14: 240-7.

68. Braunstein EM, Qiao XT, Madison B, Pinson K, Dunbar L, Gumucio DL. Villin: A marker for development of the epithelial pyloric border. Dev Dyn. 2002; 224: 90-102.

69. Shroyer NF, Helmrath MA, Wang VY, Antalffy B, Henning SJ, Zoghbi HY. Intestine-specific ablation of mouse atonal homolog 1 (Math1) reveals a role in cellular homeostasis. Gastroenterology. 2007; 132: 2478-88.

70. Shroyer NF, Wallis D, Venken KJ, Bellen HJ, Zoghbi HY. Gfi1 functions downstream of Math1 to control intestinal secretory cell subtype allocation and differentiation. Genes Dev. 2005; 19: 2412-7.

71. Sekine A, Akiyama Y, Yanagihara K, Yuasa Y. Hath1 up-regulates gastric mucin gene expression in gastric cells. Biochem Biophys Res Commun. 2006; 344: 1166-71.

72. Krizhanovsky V, Soreq L, Kliminski V, Ben-Arie N. Math1 target genes are enriched with evolutionarily conserved clustered E-box binding sites. J Mol Neurosci. 2006; 28: 211-29.

73. Park KS, Korfhagen TR, Bruno MD, Kitzmiller JA, Wan H, Wert SE, et al. SPDEF regulates goblet cell hyperplasia in the airway epithelium. J Clin Invest. 2007; 117: 978-88.

Documents

List of Supplementary Files - link.springer.com€¦ · Web viewSupplementary Table 1 (Word). Target genes of CDX1 and CDX2, and references used in creating the CDX1/CDX2 GenMapp