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 |
|---|---|---|
| ZFLNCG06203 | 209300 | Atransferrinemia |
| ZFLNCG10645 | 164400 | Spinocerebellar ataxia 1 |
| ZFLNCG02042 | 609622 | Short QT syndrome 3 |
| ZFLNCG02054 | 234200 | Neurodegeneration with brain iron accumulation 1 |
| ZFLNCG04391 | 601005 | Timothy syndrome |
| ZFLNCG10304 | 609423 | HIV1 infection, resistance to |
| ZFLNCG06907 | 248190 | Hypomagnesemia 5, renal, with ocular involvement |
| ZFLNCG02054 | 607236 | HARP syndrome |
| ZFLNCG10716 | 249700 | Langer mesomelic dysplasia |
| ZFLNCG05355 | 613353 | Mononeuropathy of the median nerve, mild |
| ZFLNCG06817 | 601777 | Cone-rod dystrophy 6 |
| ZFLNCG02999 | 610227 | Seborrhea-like dermatitis with psoriasiform elements |
| ZFLNCG00765 | 256700 | Neuroblastoma, susceptibility to, 1 |
| ZFLNCG12837 | 210250 | Sitosterolemia |
| ZFLNCG04137 | 218030 | Apparent mineralocorticoid excess |
| ZFLNCG13058 | 612847 | Brachyolmia 4 with mild epiphyseal and metaphyseal changes |
| ZFLNCG09045 | 613118 | Thrombophilia due to antithrombin III deficiency |
| ZFLNCG02428 | 614915 | Lethal congenital contracture syndrome 4 |
| ZFLNCG06107 | 234200 | Neurodegeneration with brain iron accumulation 1 |
| ZFLNCG11604 | 155240 | Medullary thyroid carcinoma |
| ZFLNCG13482 | 604233 | Epilepsy, generalized, with febrile seizures plus, type 1 |
| ZFLNCG05710 | 256030 | Nemaline myopathy 2, autosomal recessive |
| ZFLNCG03410 | 600072 | Insomnia, fatal familial |
| ZFLNCG10442 | 300802 | Mental retardation, X-linked 96 |
| ZFLNCG03530 | 270420 | Diarrhea 3, secretory sodium, congenital, syndromic |