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 |
|---|---|---|
| ZFLNCG00570 | 310500 | Night blindness, congenital stationary (complete), 1A, X-linked |
| ZFLNCG10738 | 607476 | Newfoundland rod-cone dystrophy |
| ZFLNCG01064 | 609069 | Pancreatic and cerebellar agenesis |
| ZFLNCG01693 | 166200 | Osteogenesis imperfecta, type I |
| ZFLNCG05702 | 611544 | Cataract 17, multiple types |
| ZFLNCG07461 | 613980 | Atrial fibrillation, familial, 9 |
| ZFLNCG13205 | 181400 | Scapuloperoneal syndrome, neurogenic, Kaeser type |
| ZFLNCG13371 | 169100 | Char syndrome |
| ZFLNCG06056 | 613267 | Corneal dystrophy, Fuchs endothelial, 3 |
| ZFLNCG05355 | 601596 | Charcot-Marie-Tooth disease, type 4C |
| ZFLNCG03277 | 108600 | Spastic ataxia 1, autosomal dominant |
| ZFLNCG06931 | 611638 | Microphthalmia with coloboma 5 |
| ZFLNCG08194 | 180920 | Aplasia of lacrimal and salivary glands |
| ZFLNCG12274 | 170390 | Andersen syndrome |
| ZFLNCG03618 | 142946 | Holoprosencephaly-4 |
| ZFLNCG13186 | 115430 | Carpal tunnel syndrome, familial |
| ZFLNCG03410 | 123400 | Creutzfeldt-Jakob disease |
| ZFLNCG11786 | 613554 | von Willebrand disease, types 2A, 2B, 2M, and 2N |
| ZFLNCG00362 | 128230 | Dystonia, DOPA-responsive, with or without hyperphenylalaninemia |
| ZFLNCG12313 | 248190 | Hypomagnesemia 5, renal, with ocular involvement |
| ZFLNCG04642 | 603689 | Myopathy, proximal, with early respiratory muscle involvement |
| ZFLNCG04391 | 607876 | Epilepsy, myoclonic, familial adult, 2 |
| ZFLNCG10279 | 614524 | Fibrochondrogenesis 2 |
| ZFLNCG08615 | 226600 | Epidermolysis bullosa dystrophica, AR |
| ZFLNCG12732 | 605432 | Radioulnar synostosis with amegakaryocytic thrombocytopenia 1 |