Table 9.
Summary of MDR analyses
| a. PTB Maternal | ||||
|---|---|---|---|---|
| Algorithm | Model | Testing Balanced Accuracy |
Cross Validation Consistency |
p-value |
| Balanced Accuracy with all tag SNPS | rs2069762 | 0.55 | 6/10 | 0.377 |
| rs2069762 rs17689966 | 0.59 | 6/10 | 0.132 | |
| rs3917318rs2069762 rs7338575 | 0.55 | 2/10 | 0.397 | |
| Balanced Accuracy with TuRF – 10 SNPS | rs2069762 | 0.55 | 10/10 | 0.321 |
| GNSC_635148713 rs2069762 | 0.55 | 5/10 | 0.330 | |
| rs2069762rs5369 GNSC_30713312 | 0.61 | 9/10 | 0.057 | |
| Balanced Accuracy with Tag SNPs with p < 0.05 | rs1882435 | 0.56 | 9/10 | 0.331 |
| rs2269435 rs5440 | 0.56 | 3/10 | 0.306 | |
| rs1882435rs34003 rs10459953 | 0.59 | 4/10 | 0.139 | |
| BalancedAccuracy with Tag SNPs with p < 0.10 | rs1882435 | 0.56 | 8/10 | 0.356 |
| rs2269435 rs5440 | 0.53 | 2/10 | 0.579 | |
| rs1882435rs34003 Rs10459953 | 0.55 | 2/10 | 0.406 | |
| b. PTB Fetal | ||||
|---|---|---|---|---|
| Algorithm | Model | Testing Balanced Accuracy |
Cross Validation Consistency |
p-value |
| Balanced Accuracy with all tag SNPS | rs2069762 | 0.54 | 4/10 | 0.581 |
| rs3752896 rs2069762 | 0.59 | 5/10 | 0.204 | |
| rs1250215rs3752896 rs2069762 | 0.56 | 2/10 | 0.371 | |
| Balanced Accuracy with TuRF – 10 SNPS | rs2069762 | 0.55 | 8/10 | 0.432 |
| rs2304573 rs2621208 | 0.61 | 10/10 | 0.085 | |
| rs2304573 rs2621208 rs2252070 | 0.62 | 8/10 | 0.063 | |
|
Balanced Accuracy with Tag SNPs with p< 0.05 |
rs2069772 | 0.56 | 8/10 | 0.292 |
| rs2069772 rs16975492 | 0.59 | 5/10 | 0.174 | |
| rs34003 rs321225 rs16975492 | 0.53 | 3/10 | 0.634 | |
| Balanced Accuracy with Tag SNPs with p < 0.10 | rs2069772 | 0.56 | 8/10 | 0.292 |
| rs2069772 rs1800692 | 0.54 | 4/10 | 0.554 | |
| rs2069772 rs2146323 rs3213225 | 0.55 | 4/10 | 0.414 | |
| c. PTB Maternal-Fetal Combined | ||||
|---|---|---|---|---|
| Algorithm | Model | Testing Balanced Accuracy |
Cross Validation Consistency |
p-value |
| Balanced Accuracy with all tag SNPS | rs2069762 | 0.55 | 6/10 | 0.461 |
| rs2069762_2 rs2274849 | 0.58 | 5/10 | 0.254 | |
| Balanced Accuracy with TuRF – 10 SNPS | rs2069762_2 | 0.53 | 8/10 | 0.614 |
| rs2069762_2 rs16145 | 0.62 | 9/10 | 0.084 | |
| rs2069762_2 rs16145 rs2243290 | 0.51 | 4/10 | 0.943 | |
| Balanced Accuracy with Tag SNPs with p < 0.05 | rs8192282_2 | 0.61 | 7/10 | 0.050 |
| rs5356 rs1882435_2 | 0.58 | 2/10 | 0.160 | |
| rS1882435_2 rs16975492_2 rs2277698 | 0.54 | 1/10 | 0.456 | |
| Balanced Accuracy with Tag SNPs with p < 0.10 | rs8192282_2 | 0.61 | 7/10 | 0.050 |
| rs1143643_2 rs7338575_2 | 0.54 | 2/10 | 0.522 | |
| rs3752896 rs34003_2 rs598893_2 | 0.62 | 6/10 | 0.043 | |
*
Bold indicates a statistically significant interaction (permutation p < 0.05).
Combined analysis consisted of matching fetal to maternal individuals and adding the SNPs to the analysis (e.g., instead of an individual having 751 SNPs this would increase to 1449). Any results with a “_2” indicates that the genotypes were fetal. Any maternal or fetal genotypes without matches were removed from the combined analysis.