The transcriptional network activated by Cln3 cyclin at the G1-to-S transition of the yeast cell cycle

Table 1 Summary of targets controlled by MBF

Ranking	Systematic name	Standard name	Cell cycle peak^a	TF binding^b	Motifs ACGCG^c	Previous classifications^d	Functional class^e
1	YMR179W	SPT21	14	[15-18]	2 (1)	[23,35-38]	Others
2	YKL113C	RAD27	20	[15-18]	1 (1)	[23, 35-38]	DNA RRR
3	YLR103C	CDC45	18	[15-18]	2	[22, 23, 35-38]	DNA RRR
4	YNL102W	POL1	20	[15,18]	3 (1)	[22,23,36]	DNA RRR
5	YJL074C	SMC3	19	[17,18]	2	[22,23,35-38]	Cell cycle
6	YOR074C	CDC21	22	[15-18]	2	[22,23,35-38]	DNA RRR
7	YNL312W	RFA2	22	[15,17,18]	2	[22,23,36,37]	DNA RRR
8	YAR007C	RFA1	19	[17,18]	2 (1)	[22,23,36-38]	DNA RRR
9	YAR008W	SEN34	17	[17,18]	2 (2)	[22,23,36-38]	Others
10	YDL003W	MCD1	20	[15-18]	2 (2)	[23,35-38]	Cell cycle
41	YNL082W	PMS1	13		2		DNA RRR
56	YOR144C	ELG1	16		1		DNA RRR
66	YKL092C	BUD2	ND		1		BP
67	YDL157C		32		1		Unknown
68	YNL206C	RTT106	19		1		DNA RRR
69	YKL108W	SLD2	13		1		DNA RRR
70	YOR284W	HUA2	17		1		BP
71	YDL164C	CDC9	18		2	[36]	DNA RRR
72	YLR032W	RAD5	15		2		DNA RRR
77	YDL102W	POL3	17		1 (1)		DNA RRR
78	YNL263C	YIF1	24		1 (1)		Others
79	YPL208W	RKM1	23		1		Others
83	YKL042W	SPC42	21		1		SPB
84	YML133C		8	[15]	(1)		DNA RRR
85	YJL173C	RFA3	31		2 (1)	[36]	DNA RRR
86	YJL181W		13		3		Unknown
88	YKL089W	MIF2	ND			[36]	SPB
89	YML060W	OGG1	22		1		DNA RRR
90	YBR275C	RIF1	22	[18]			DNA CM
91	YOR368W	RAD17	ND		1		DNA RRR
95	YNL339C	YRF1-6	10	[15]	(1)		DNA RRR
96	YOL090W	MSH2	20		1	[36]	DNA RRR
99	YOR114W		24		1		Unknown
101	YHL013C	OTU2	ND	[17]		[35,37]	Unknown
103	YOR195W	SLK19	27		1		SPB
104	YGR140W	CBF2	34		1 (1)		Cell cycle
106	YNL309W	STB1	15		1 (1)		Cell cycle
107	YOL034W	SMC5	ND		1		DNA RRR
108	YER016W	BIM1	29		2		Cytoskeleton
109	YDR356W	SPC110	33		1		Cytoskeleton
110	YDL105W	NSE4	16				DNA RRR
111	YNL088W	TOP2	34		2		DNA CM

^aPercent value of the whole duration of the cell cycle taken from [20, 45]. ^bReferences for publications where Mbp1 binding was detected. ^cNumber of motifs in the first 200 bp upstream of the TSS (motifs beyond the first 200 bp upstream). ^dReferences for publications where the gene was predicted as target of MBF. ^eDNA RRR, DNA replication, recombination and repair; BP, budding/polarity; SPB, spindle pole body; DNA CM, DNA conformation modification. The top ten predicted targets and all those specific (not detected in [22] or [23]) to our classification are shown. The full list is available in Additional file 3. ND, not determined.

ISSN: 1474-760X