Analysis of BMP4 and BMP7 signaling in breast cancer cells unveils time-dependent transcription patterns and highlights a common synexpression group of genes

Table 3 Summary of the temporal clusters obtained from the analysis of BMP4 data.

	Early		Early-intermediate		Late-intermediate		Late		Undetermined
	cluster ID	genes/cluster	cluster ID	genes/cluster	cluster ID	genes/cluster	cluster ID	genes/cluster	cluster ID	genes/cluster
HCC1419	2	256	1	273	8	189	6	362	3	178
(14 clusters)	5	148	4	341			11	353	7	152
	10	107	14	31					9	224
	12	157
	13	132
Total		800		654		189		715		554
HCC1954	2	265	4	256	1	158	7	283
(12 clusters)	5	353	9	258	3	419	10	156
	6	108	11	244
	8	110	12	251
Total		836		1009		577		439
MDA-MB-361	6	277	3	155	8	322	1	557	5	289
(14 clusters)	13	215	7	177	9	487	2	483	10	362
	14	355	12	270	11	554	4	564
Total		847		602		1363		1604		651
SK-BR-3	1	77	2	232	3	235	4	252
(17 clusters)	6	70	10	402	7	365	5	300
	11	148	14	383	8	1322
	13	567	16	332	9	1104
	17	51			12	95
					15	508
Total		913		1349		3629		552
ZR-75-30	1	601	9	140	4	2201	8	369	2	10
(18 clusters)	5	107	10	780	14	185	11	688	3	10
	12	53	18	436	16	809			6	9
	15	227							7	9
	17	1363							13	17
Total		2351		1356		3195		1057		55

Gene clusters were classified in four temporal categories (early, early-intermediate, late-intermediate and late). Clusters with unclear profiles were classified as undetermined. The cluster ID column contains the ID number of the cluster.

ISSN: 1755-8794