Table 2.

Gene ontology analysis of differentially expressed genes^a

	Epithelial cells		Stromal cells		Proliferating cells
Rank	GO class	# molecules	GO class	# molecules	GO class	# molecules
1	Positive regulation of transcription from RNA polymerase II promoter	97	Regulation of transcription from RNA polymerase II promoter	319	Regulation of transcription from RNA polymerase II promoter	172
2	Cell differentiation	74	Positive regulation of transcription from RNA polymerase II promoter	265	Positive regulation of transcription from RNA polymerase II promoter	158
3	Multicellular organism development	70	Negative regulation of transcription from RNA polymerase II promoter	223	Regulation of transcription, DNA templated	137
4	Negative regulation of transcription	69	Cell differentiation	198	Negative regulation of transcription from RNA polymerase II promoter	133
5	Lipid metabolic process	60	Multicellular organism development	185	Multicellular organism development	126

^aTop 5 Biological Process classes in epithelial, stromal and proliferating cell clusters.