A matrisome RNA signature from early-pregnancy mouse mammary fibroblasts predicts distant metastasis-free breast cancer survival in humans

Ibrahim, Ayman M.; Bilsland, Alan; Rickelt, Steffen; Morris, Joanna S.; Stein, Torsten

doi:10.1186/s13058-021-01470-3

Table 1 Top 50 differentially expressed RNAs (using RankP)

From: A matrisome RNA signature from early-pregnancy mouse mammary fibroblasts predicts distant metastasis-free breast cancer survival in humans

Probe_ID	Gene symbol	p-values	Fold change Preg/Ctrl	Median Preg	Median Ctrl
ILMN_2766542	Grlf1	0.0001	5.57	571.11	102.54
ILMN_1241214	Myh4	0.0001	5.05	293.53	58.09
ILMN_2487824	Alx4	0.0001	4.23	666.18	157.52
ILMN_2635784	Gpc1	0.0001	3.74	744.07	199.17
ILMN_2936517	Bcl2l2	0.0002	4.74	749.98	158.23
ILMN_1239430	Mrc1	0.0002	3.25	331.29	101.97
ILMN_2647028	Copz2	0.0002	2.84	729.06	256.57
ILMN_2930819	Acd	0.0003	3.20	1064.86	333.05
ILMN_1247540	Vcan	0.0003	3.10	435.82	140.46
ILMN_2945275	Rbm15	0.0005	2.84	427.28	150.19
ILMN_2636443	Bcl2l2	0.0006	3.49	857.62	245.92
ILMN_2709782	Mtap2	0.0008	3.98	205.62	51.69
ILMN_1258929	2610110G12RIK	0.0008	3.60	214.99	59.71
ILMN_1230753	B230399E16RIK	0.0008	3.32	575.35	173.35
ILMN_1249517	Tmem168	0.0010	3.53	225.91	64.01
ILMN_2683802	Nudt9	0.0010	2.69	203.48	75.67
ILMN_1237186	Spint1	0.0011	2.67	152.09	57.02
ILMN_1238360	LOC100042405	0.0011	2.41	941.65	390.74
ILMN_1246127	Prss23	0.0013	2.34	483.67	206.61
ILMN_2678002	Notch2	0.0015	2.66	227.93	85.71
ILMN_2463181	Tnc	0.0016	2.38	317.34	133.06
ILMN_2723024	BC004044	0.0016	2.28	168.75	74.1
ILMN_2878274	Copz2	0.0017	2.18	604.97	277.56
ILMN_2840818	Cmpk	0.0018	2.52	970.31	384.49
ILMN_1226553	Mtap2	0.0020	3.65	154.53	42.28
ILMN_1237216	LOC100047827	0.0020	2.14	831.45	388.45
ILMN_2697020	Bat2d	0.0021	2.12	503.2	237.3
ILMN_2670344	Lrrn2	0.0022	2.26	139.51	61.62
ILMN_2486906	Wisp2	0.0001	− 3.31	140.62	466.12
ILMN_2597606	Gjc2	0.0002	− 3.75	66.05	247.37
ILMN_2684370	Igk-c	0.0002	− 4.42	57.87	255.67
ILMN_1243031	Trrp1	0.0006	− 2.33	51.06	118.96
ILMN_1236368	Orai1	0.0007	− 2.11	79.89	168.37
ILMN_1232263	Kcnk5	0.0009	− 2.33	255.3	594.28
ILMN_1231553	Bdh1	0.0009	− 2.86	49.33	141.27
ILMN_2756435	Cebpb	0.0011	− 2.56	705.42	1802.36
ILMN_2906489	Mocos	0.0011	− 2.65	149.61	396.1
ILMN_2704562	LOC100047628	0.0011	− 4.67	58.56	273.36
ILMN_2968907	Tipin	0.0012	− 2.32	164.69	381.45
ILMN_3099265	Anapc11	0.0013	− 3.42	60.7	207.32
ILMN_2686327	Gas6	0.0014	− 1.63	704.55	1151.77
ILMN_1240289	BC023744	0.0014	− 2.07	138	286.23
ILMN_2760019	Cxcl13	0.0015	− 2.70	99.75	269.81
ILMN_2907214	Tcea3	0.0016	− 2.27	75.55	171.15
ILMN_2687794	Tbx15	0.0016	− 2.32	307.36	714.05
ILMN_1239386	Galntl2	0.0016	− 2.52	115.11	290.55
ILMN_1246999	LOC677205	0.0018	− 2.04	194.58	396.1
ILMN_1232824	D430003P20RIK	0.0018	− 2.82	199.47	562.53
ILMN_2601020	Cnot10	0.0021	− 2.32	144.9	335.67
ILMN_2890935	Avpr1a	0.0021	− 3.19	121.21	386.73

The table shows the top 50 hits (Probe ID) of RNAs that show significant (p < 0.05) differential expression (Fold-change) in fibroblast from 3-days pregnant (Preg) compared to virgin control (Crtl) mice, using median signal intensities from 3 individual experiments (biological replicates) and RankP software [18]. Probes have been ranked by decreasing fold-change and increasing p-value

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