TABLE 5.

Trends in mean expression of stage-salient genes with cancer progression. The inferred regulation status in cancer is noted.

Gene	Stage information	β0	β1	β2	β3	β4	Adj.P.Val (from contrast)	Adj.P.Val (from control)	Regulation status
CHRNA6	Stage I	−1.67	3.35	2.85	2.93	2.21	2.25E-52	7.59E-51	Up
MMP10	Stage I	0.04	3.19	2.76	2.61	1.68	5.07E-23	1.66E-24	Up
DEPDC1	Stage II	2.01	2.83	3.32	3.03	2.43	3.26E-92	1.39E-89	Up
COX7A1	Stage II	2.36	−2.31	−2.62	−2.30	−2.03	3.15E-72	4.39E-69	Down
KCNK15	Stage III	1.99	2.40	1.85	2.59	1.72	8.24E-21	5.27E-20	Up
MFSD4	Stage III	1.56	−2.06	−1.96	−2.32	−1.79	4.51E-41	2.88E-41	Down
CDH19	Stage III	−3.13	−2.60	−2.58	−3.19	−2.61	3.31E-26	1.53E-24	Down
CXCL5	Stage III	−2.03	−2.47	−2.17	−2.87	−2.83	5.12E-24	1.30E-22	Down
AKR7A3	Stage III	3.26	2.05	1.52	2.33	2.12	1.83E-13	2.55E-12	Up
DEGS2	Stage III	4.82	2.60	2.02	2.69	2.27	9.30E-22	1.68E-21	Up
CST2	Stage III	−0.60	4.18	3.57	4.22	3.52	2.19E-48	8.75E-52	Up
LOC100124692	Stage III	−2.52	−3.64	−3.60	−4.13	−3.83	2.98E-46	8.24E-48	Down
GDF5	Stage III	−1.26	−2.08	−2.31	−2.63	−2.24	1.67E-26	3.64E-26	Down
FOXA1	Stage III	7.19	2.09	1.64	2.32	1.94	4.81E-13	1.30E-11	Up
EGR3	Stage IV	4.14	−2.33	−2.71	−2.57	−4.04	3.53E-18	1.46E-44	Down
FOS	Stage IV	7.27	−2.44	−3.07	−3.09	−4.19	3.40E-21	3.50E-62	Down
FOSB	Stage IV	4.71	−3.80	−4.33	−4.30	−5.66	9.16E-25	4.51E-76	Down
DUSP1	Stage IV	7.00	−2.13	−2.40	−2.23	−3.13	2.51E-19	1.81E-58	Down
FREM1	Stage IV	0.85	−3.67	−4.13	−3.70	−5.09	1.29E-23	2.43E-77	Down
EGR1	Stage IV	7.45	−2.72	−3.18	−3.11	−4.00	3.63E-23	2.23E-75	Down
HFM1	Stage IV	−3.44	−2.02	−2.24	−2.23	−3.02	6.13E-18	1.43E-52	Down
ABCA10	Stage IV	−0.28	−4.38	−4.80	−4.48	−5.67	5.63E-33	3.89E-115	Down
KLK5	Stage IV	1.26	−3.21	−3.44	−3.44	−5.45	6.93E-20	2.41E-09	Down
KCNA1	Stage IV	−1.69	−2.58	−2.99	−2.81	−3.93	3.08E-15	1.99E-45	Down

Bold values indicate coefficients with the largest absolute values, enabling insight into stage-specific expression.