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 | |||||