Method of omim prediction
We use the RWRH (random walk with restart on heterogeneous network) algorithm1 to analyze the relationship between lncRNA and OMIM in MATLAB. The upper subnetwork is coding-lncRNA gene co-expression network, and the lower network is OMIM similarity network. OMIM similarity matrix is from Disimweb2 and gene-OMIM relationship is from InterMine3.
1. Li, Y. & Patra, J. C. Genome-wide inferring gene-phenotype relationship by walking on the heterogeneous network. Bioinformatics 26, 1219-1224, doi:10.1093/bioinformatics/btq108 (2010).
2. Caniza, H., Romero, A. E. & Paccanaro, A. A network medicine approach to quantify distance between hereditary disease modules on the interactome. Sci Rep 5, 17658, doi:10.1038/srep17658 (2015).
3. Smith, R. N. et al. InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data. Bioinformatics 28, 3163-3165, doi:10.1093/bioinformatics/bts577 (2012).
| ZFLNC lncRNA | OMIM | Phenotype |
|---|---|---|
| ZFLNCG03524 | 147891 | Small patella syndrome |
| ZFLNCG07029 | 614424 | Joubert syndrome 14 |
| ZFLNCG05975 | 265450 | Pulmonary venoocclusive disease 1 |
| ZFLNCG01693 | 225320 | Ehlers-Danlos syndrome, cardiac valvular form |
| ZFLNCG13482 | 615377 | Atrial fibrillation, familial, 13 |
| ZFLNCG11824 | 219200 | Cutis laxa, autosomal recessive, type IIA |
| ZFLNCG03614 | 147250 | Single median maxillary central incisor |
| ZFLNCG02042 | 170390 | Andersen syndrome |
| ZFLNCG01355 | 609283 | Progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant 2 |
| ZFLNCG06950 | 615413 | Spermatogenic failure 12 |
| ZFLNCG12788 | 302200 | Cataract 40, X-linked |
| ZFLNCG08726 | 276710 | Tyrosinemia, type III |
| ZFLNCG13032 | 308350 | Epileptic encephalopathy, early infantile, 1 |
| ZFLNCG10712 | 609924 | Aminoacylase 1 deficiency |
| ZFLNCG12156 | 612291 | Joubert syndrome 8 |
| ZFLNCG09823 | 123400 | Creutzfeldt-Jakob disease |
| ZFLNCG04859 | 613671 | Mental retardation, anterior maxillary protrusion, and strabismus |
| ZFLNCG11375 | 612271 | Skin/hair/eye pigmentation, variation in, 11 (Melanesian blond hair) |
| ZFLNCG03375 | 201710 | Lipoid adrenal hyperplasia |
| ZFLNCG06609 | 250850 | Methionine adenosyltransferase deficiency, autosomal recessive |
| ZFLNCG03547 | 615512 | Hemolytic anemia due to triosephosphate isomerase deficiency |
| ZFLNCG04509 | 611277 | Febrile seizures, familial, 8 |
| ZFLNCG06198 | 147250 | Single median maxillary central incisor |
| ZFLNCG05895 | 142680 | Periodic fever, familial |
| ZFLNCG06743 | 309510 | Partington syndrome |