Next-generation transcriptome sequencing of the premenopausal breast epithelium using specimens from a normal human breast tissue bank

Table 3 Cell cycle phase and function

	G1/S	S	G2	G2/M	M/G1
DNA replication initiation	CDC45L				MCM10
	CDC6
	MCM2
	MCM4
	ORC1
	ORC6
	CDT1
Nucleotide metabolism				DTYMK
Nucleotide metabolism				RRM2
DNA replication and repair	BRIP1	TYMS	TOP2A	FANCA
	BLM			RAD54L
	DNA2			NEIL3
	RAD51			PTTG1
	EXO1			POLQ
	POLE2			TRIP13
	PCNA			KIAA0101
	UNG
	BRCA1
	GINS2
	DTL
Chromatin assembly and disassembly	HELLS	HIST1H1B	HJURP	ASF1B
	EZH2	HIST1H1D
		HIST1H2AB
		HIST1H2AH, HIST1H2AK, HIST1H2AM, HIST1H2AG,
		HIST1H2AL
		HIST1H2AJ
		HIST1H2BH
		HIST1H2BF, HIST1H2BE
		HIST1H2BL
		HIST1H2BM
		HIST1H2BN
		HIST1H2BO
		HIST1H2AD, HIST1H3C, HIST1H3F, HIST1H3G, HIST1H3B, HIST1H3H, HIST1H3J, HIST1H3A, HIST1H3D
		HIST1H4L, HIST1H4F, HIST1H4A
Cell cycle regulation-interphase	CLSPN			CCNA2
	E2F1			CKS2
	CHEK1			MKI67
Cell cycle regulation-mitosis	FBXO5			FOXM1	CCNB1
				CCNB2
				CDC20
				CDC25C
				CIT
				MELK
				PKMYT1
				UBE2C
Microtubules and spindle formation				KIF11	KIF18A
				KIF14	KIF4A
				KIF15
				KIF23
				KIF2C
				SPAG5
				TPX2
Spindle regulation				BUB1B	ASPM
				BUB1
				AURKB
				PLK4
				PRC1
				TTK
Chromosome segregation	NDC80	ZWINT	NUF2	BIRC5	ESPL1
	SPC25		NCAPG	CENPE	CENPF
	DSCC1		NCAPH	DLGAP5
			SGOL1	KIFC1
			CASC5	NUSAP1
Cytoskeleton	AMPH			CKAP2L
Nuclear membrane					LAMB1
Transcription	ATAD2			MLF1IP
	CDCA7
	ZNF367
Nuclear division			CDCA2	ANLN
			FAM83D	CDC20
			FAM83D	CDCA3
GTPase activator activity				DEPDC1
				DEPDC1B
				ARHGAP-11A
				IQGAP3
Cytokinesis				PBK	RACGAP-1
				ECT2
				KPNA2
Membrane transport		ABCC2
Metabolic process				HMMR	CBR3
				HSPH1	ELOVL6
				SRD5A1	ELOVL6

Differentially expressed genes were allocated to a phase of the cell cycle by referring to phase allocations for HeLa cells [29], foreskin fibroblasts [30], immortalized keratinocytes [31] and osteosarcoma cells [32]. Functions were assigned by referring to Bar-Joseph et al.[30], the database for annotation, visualization and integrated discovery (DAVID) and Ingenuity Pathway Analysis (IPA). Table modeled after Table S3 in Additional file 2 in reference [30].

ISSN: 1465-542X