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 |
|---|---|---|
| ZFLNCG00516 | 607236 | HARP syndrome |
| ZFLNCG11374 | 113750 | Skin/hair/eye pigmentation 4, fair/dark skin |
| ZFLNCG03174 | 613982 | Osteogenesis imperfecta, type VI |
| ZFLNCG07430 | 613794 | Retinitis pigmentosa 20 |
| ZFLNCG06123 | 610202 | Cataract 21, multiple types |
| ZFLNCG04372 | 136520 | Foveal hypoplasia 1 |
| ZFLNCG13345 | 609924 | Aminoacylase 1 deficiency |
| ZFLNCG12837 | 261100 | Megaloblastic anemia-1, Finnish type |
| ZFLNCG08399 | 613837 | Leber congenital amaurosis 11 |
| ZFLNCG12546 | 605809 | Myasthenic syndrome, congenital, 4A, slow-channel |
| ZFLNCG05577 | 254090 | Ullrich congenital muscular dystrophy 1 |
| ZFLNCG11375 | 606574 | Albinism, oculocutaneous, type IV |
| ZFLNCG09551 | 614402 | Microphthalmia, syndromic 11 |
| ZFLNCG03484 | 615722 | Bosch-Boonstra-Schaaf optic atrophy syndrome |
| ZFLNCG11389 | 612356 | Thrombophilia due to heparin cofactor II deficiency |
| ZFLNCG09823 | 245300 | Kuru, susceptibility to |
| ZFLNCG04509 | 607681 | Epilepsy, childhood absence, susceptibility to, 2 |
| ZFLNCG05515 | 142945 | Holoprosencephaly-3 |
| ZFLNCG02343 | 150699 | Leiomyoma, uterine, somatic |
| ZFLNCG08635 | 167870 | Panic disorder, susceptibility to |
| ZFLNCG08626 | 601462 | Myasthenic syndrome, congenital, 1A, slow-channel |
| ZFLNCG08615 | 607523 | Toenail dystrophy, isolated |
| ZFLNCG05197 | 245400 | Mitochondrial DNA depletion syndrome 9 (encephalomyopathic type with methylmalonic aciduria) |
| ZFLNCG10864 | 610227 | Seborrhea-like dermatitis with psoriasiform elements |
| ZFLNCG09755 | 615377 | Atrial fibrillation, familial, 13 |