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 |
|---|---|---|
| ZFLNCG03410 | 606688 | Prion disease with protracted course |
| ZFLNCG13032 | 309510 | Partington syndrome |
| ZFLNCG10550 | 108600 | Spastic ataxia 1, autosomal dominant |
| ZFLNCG10231 | 611819 | Long QT syndrome-10 |
| ZFLNCG08297 | 148300 | Keratoconus 1 |
| ZFLNCG09576 | 613986 | Pituitary hormone deficiency, combined, 6 |
| ZFLNCG04372 | 106210 | Cataract with late-onset corneal dystrophy |
| ZFLNCG11604 | 256800 | Insensitivity to pain, congenital, with anhidrosis |
| ZFLNCG10706 | 613957 | Spermatogenic failure 8 |
| ZFLNCG11625 | 180105 | Retinitis pigmentosa 10 |
| ZFLNCG09576 | 300088 | Epileptic encephalopathy, early infantile, 9 |
| ZFLNCG11409 | 170390 | Andersen syndrome |
| ZFLNCG09412 | 108600 | Spastic ataxia 1, autosomal dominant |
| ZFLNCG06562 | 301050 | Alport syndrome |
| ZFLNCG08615 | 131705 | Transient bullous of the newborn |
| ZFLNCG09823 | 606688 | Prion disease with protracted course |
| ZFLNCG05895 | 614810 | Multiple sclerosis, susceptibility to, 5 |
| ZFLNCG08635 | 181500 | Schizophrenia, susceptibility to |
| ZFLNCG05711 | 256030 | Nemaline myopathy 2, autosomal recessive |
| ZFLNCG10706 | 264080 | Progesterone resistance |
| ZFLNCG12995 | 609622 | Short QT syndrome 3 |
| ZFLNCG05097 | 610773 | Mitochondrial phosphate carrier deficiency |
| ZFLNCG05735 | 601596 | Charcot-Marie-Tooth disease, type 4C |
| ZFLNCG11158 | 608118 | Zinc deficiency, transient neonatal |
| ZFLNCG12385 | 137750 | Glaucoma 1A, primary open angle |