Table 2

Gene list of the 27 genes from the three USC-models, corresponding Assay-on-Demand TaqMan® probes, SAM-results from the second selection step, and coefficients of the final L1 penalized logistic regression model
Genes Evaluation SAM L1 model (13 genes)
ProbeID Gene symbol TaqMan® probe RT-qPCR q-value (0.15) Coefficient
USC model 1
119290 CFP Hs00175252_m1 yes 0.13 1.241
182018 NOXA1 Hs01017917_m1 yes 0.09 −0.888
184360 RETNLB Hs00395669_m1 no
212552 ZNF546 Hs00418908_m1 no
228089 NEAT1 Hs01008264_s1 yes 0.01 2.075
713562 N/A (BC037918) Hs00860048_g1 yes 0.01 0.035
10546171 N/A Hs01036865_m1 no
USC model 2
105700 AMZ1 Hs00401010_m1 no
105743 DIS3 Hs00209014_m1 yes 0.10 1.177
109227 ZNF419 Hs00226724_m1 yes 0.08 0.145
110071 CCR2 Hs00356601_m1 yes 0.01 0.376
110496 DYSF Hs00243339_m1 yes 0.49 not used
118384 HGS Hs00610371_m1 yes 0.39 not used
136788 ALX4 Hs00222494_m1 no
142487 B4GALT1 Hs00155245_m1 yes 0.11 −0.642
160314 DBNL Hs00429482_m1 yes 0.50 not used
161219 MPP1 Hs00609971_m1 yes 0.41 not used
161567 PAPOLG Hs00224661_m1 yes 0.01 −0.454
162222 PRIC285 Hs00375688_m1 yes 0.09 −1.794
223870 CCL3L1 Hs00824185_s1 yes 0.32 not used
224628 ANKHD1 Hs00226589_m1 yes 0.24 not used
USC model 3 no
115368 AP2A1 Hs00367123_m1 yes 0.15 −0.199
157342 C1orf63 Hs00220428_m1 yes <0.01 −0.230
177183 RMI1 Hs00227878_m1 yes 0.37 not used
204670 GRM1 Hs00168250_m1 no
205406 OSM Hs00171165_m1 yes 0.01 −1.105
220229 ASGR1 Hs00155881_m1 no
Intercept: 6.320

Pils et al.

Pils et al. BMC Cancer 2013 13:178   doi:10.1186/1471-2407-13-178

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