Table 7.
Five random permutation models with higher R2 than the L1 model and the adjusted R2 when tested on the Infinium data-set
| Data Set | R2 | Adjusted R2 and stability when tested on Infinium Data | Genes in model | Gene names |
|---|---|---|---|---|
| 22 newborns, methylation at 1,536 CpGs assayed using Illumina's GoldenGate array | 0.86 | 0.59 (46/48) | ADAM9 | ADAM metallopeptidase domain 9 |
| DPYSL3 | dihydropyrimidinase-like 3 | |||
| FABP5 | fatty acid binding protein 5 | |||
| HOXB4 | homeobox B4 | |||
| MHC2TA | CIITA, class II, major histocompatibility complex, transactivator | |||
| PRO1853 | C2orf56, chromosome 2 open reading frame 56 | |||
| 0.82 | negative | GRB10 | growth factor receptor-bound protein 10 | |
| HRASLS3 | PLA2G16, phospholipase A2, group XVI | |||
| MYH14 | myosin, heavy chain 14, non-muscle | |||
| NM15555 | ||||
| WNT16 | wingless-type MMTV integration site family, member 16 | |||
| 0.81 | 0.48 (44/48) | BEST1 | bestrophin 1 | |
| IMPDH2 | IMP (inosine 5'-monophosphate) dehydrogenase 2 | |||
| OSBPL5 | oxysterol binding protein-like 5 | |||
| PAX3 | paired box 3 | |||
| PSMC3 | proteasome (prosome, macropain) 26S subunit, ATPase, 3 | |||
| SERPINF1 | serpin peptidase inhibitor, clade F (alpha-2 antiplasmin, pigment epithelium derived factor), member 1 | |||
| 0.80 | 0 (45/48) | CBX1 | chromobox homolog 1 | |
| EOMES | eomesodermin | |||
| PABPC4 | poly(A) binding protein, cytoplasmic 4 (inducible form) | |||
| PIK3CG | phosphoinositide-3-kinase, catalytic, gamma polypeptide | |||
| SLC16A1 | solute carrier family 16, member 1 (monocarboxylic acid transporter 1) | |||
| TMPO | thymopoietin | |||
| 0.79 | negative | C11ORF15 | TMEM9B, TMEM9 domain family, member B | |
| CCT3 | chaperonin containing TCP1, subunit 3 (gamma) | |||
| MYH9 | myosin, heavy chain 9, non-muscle | |||
| PROX1 | prospero homeobox 1 | |||
| REST | RE1-silencing transcription factor | |||
| RPS2 | ribosomal protein S2 |