Table 2 Characteristics of the top 10 SNPs being selected as important features for the ADNI-Validation Dataset
From: Benchmarking machine learning models for late-onset alzheimer’s disease prediction from genomic data
SNP | Location | Function | Gene | Gene summary | WILCOX | FREQ |
|---|---|---|---|---|---|---|
rs429358 | 19:44908684 | Missense Variant | APOE | APOE is a protein coding gene which generates alipoprotein E, a fat-binding protein crucial in many mechanisms of the body. This gene is related to Alzheimer’s Disease and Lipoprotein Glomerulopathy among others. | 0 | 1.000 |
rs6448799 | 4:11628425 | Intron Variant | HS3ST1 / LOC107986178 | HS3ST1 is a protein coding gene which is crucial to create heparan sulfate structures that participate in sulfotransferase activity. This gene is related to Arteriosclerosis and Coronary Heart Disease. | 6e-04 | 0.288 |
rs4821554 | 22:36880042 | Noncoding (Intergenic) | Adjacent: NCF4, LOC105373022 (Uncharacterized) | Unknown | 1e-04 | 0.874 |
rs7260330 | 19:44932959 | Noncoding (Intergenic) | Adjacent: APOC1P1, APOC4-APOC2 | Unknown | 0.0027 | 0.667 |
rs10507641 | 13:59857910 | Intron Variant | DIAPH3, | DIAPH3 is a protein coding gene that generates a Diaphanous forming protein, which regulates cell movement and adhesion. It is related to Auditory Neuropathy and Neuropathy | 0 | 0.797 |
rs4733248 | 8:31302383 | Intron Variant | LOC101929492 (Uncharacterized) | Unknown | 0.0052 | 0.581 |
rs13038476 | 20:4158146 | Intron Variant | SMOX | SMOX is a protein coding gene that generates the Spermine Oxidase which helps as neurotransmitters and cell regulators. It is related to Short-Rib Thoracic Dysplasia and Acute Hemorrhagic Leukoencephalitis | 0 | 0.627 |
rs2419533 | 4:132668359 | Intron Variant | LINC01256 | LINC01256 is a non-coding RNA gene | 0.0013 | 0.716 |
rs34526999 | 5:33728435 | Intron Variant | ADAMTS12 | ADAMTS12 is a protein coding gene that generates ADAMTS which works in pulmonary cell development or tumor processes. It is related to Brachydactyly and Intrahepatic Cholestasis of Pregnancy | 0.025 | 0.445 |
rs2632516 | 17:58331728 | Intron Variant | TSPOAP1-AS1 | TSPOAP1-AS1 is a non-coding RNA gene | 0.02 | 0.387 |