Table 1.
Functional genomic studies of the gastric epithelium
| Method of Isolation | Species | Gene Expression Platform | Example Molecules Characterized | |||||
|---|---|---|---|---|---|---|---|---|
| Parietal Cells | ||||||||
| Mills et al., PNAS, 2001 (55) | magnetic bead-based cell sorting | mouse | MullK Affymetrix GeneChip | Igfbp2, Pthlh, Vegfb, Aqp4, Kcnq1 | ||||
| Lambrecht et al., Physiol Genomics, 2005 (43) | FACS - H+, K+-ATPase | rat | 22K rat oligonucleotide expression array | Kcnq1, Apelin (Apln) | ||||
| Jain et al., Physiol Genomics, 2006 (29) | FACS - H+, K+-ATPase | mouse | U74AV2 Affymetrix GeneChip | Kcnq1, Aqp4, Crb, Pthlh | ||||
| Mueller et al., Gastroenterology, 2004 (58) | laser-capture microdissection | mouse | spotted mouse cDNA microarray | Atp5b, Vegfb | ||||
| Gastric Epithelial Progenitors | ||||||||
| Mills et al., PNAS, 2002 (53) | laser-capture microdissection | mouse | MullK Affymetrix GeneChip | IgfI, Magoh, Akt | ||||
| Endocrine Cells | ||||||||
| Andersson et al., Biochem Biophys Res Commun, 2005 (3) | whole fundus digestion | mouse | mouse 430 Affymetrix GeneChip | chromogranin A, histidine decarboxylase, Vmat2 | ||||
| Lambrecht et al., Physiol Genomics, 2006 (44) | FACS, acridine orange | rat | 22K rat oligonucleotide expression array | Apelin receptor (Aplnr) | ||||
| Jain et al., Physiol Genomics, 2007 (31) | cell scraping of fundic mucosa | mouse | mouse 430A 2.0 Affymetrix GeneChip | Hdc, Vmat2 | ||||
| Lambrecht et al., Physiol Genomics, 2007 (42) | FACS, acridine orange | rat | 44K whole rat genome exression oligo array | Vmat2, Hdc | ||||
| Zymogenic Cells | ||||||||
| Mills et al., J Biol Chem, 2003 (54) | differential sedimentation | mouse | MullK Affymetrix GeneChip | Pdgfb, Fes, Nucb2 | ||||
| Ramsey et al., Development, 2007 (68) | laser-capture microdissection | mouse | mouse 430 2.0 Affymetrix GeneChip | Mistl (Bhlhb8) | ||||
| Mueller et al., Gastroenterology, 2004 (58) | laser-capture microdissection | mouse | spotted mouse cDNA microarray | pepsinogen C, phospholipase A2 group 1B | ||||
| Nozaki et al., Gastroenterology, 2008 (61) | laser-capture microdissection | mouse | mouse 430 2.0 Affymetrix GeneChip | HE4 (Wfdc2)*, Mcm3* | ||||
| Early Development | ||||||||
| Verzi et al., Gastroenterology, 2008 (81) | whole tissue digest | mouse | mouse 430 2.0 Affymetrix GeneChip | Foxql | ||||
| Choi et al., Mol Cell Biol, 2008 (12) | whole tissue digest | mouse | SAGE (Serial Analysis of Gene Expression) | Nkx6-3 | ||||
| Choi et al., Development, 2006 (11) | whole tissue digest | mouse | targeted, transcription factor-specific RT-PCR | Mistl, MathI | ||||
| Surface Mucous Pit Cells | ||||||||
| Ramsey et al., Development, 2007 (68) | laser-capture microdissection | mouse | Mouse 430 2.0 Affymetrix GeneChip | |||||
| Mueller et al., Gastroenterology, 2004 (58) | laser-capture microdissection | mouse | spotted mouse cDNA microarray | Foxq1, Cdh1, Grb-2 | ||||
*
Genes upregulated in zymogenic cell metaplasia.