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 |
|---|---|---|
| ZFLNCG11593 | 251850 | Microvillus inclusion disease |
| ZFLNCG06609 | 245400 | Mitochondrial DNA depletion syndrome 9 (encephalomyopathic type with methylmalonic aciduria) |
| ZFLNCG00224 | 605355 | Nemaline myopathy 5, Amish type |
| ZFLNCG06743 | 308350 | Epileptic encephalopathy, early infantile, 1 |
| ZFLNCG05710 | 601003 | Brody myopathy |
| ZFLNCG03614 | 142945 | Holoprosencephaly-3 |
| ZFLNCG05895 | 186580 | Blau syndrome |
| ZFLNCG08591 | 266600 | Inflammatory bowel disease 1 |
| ZFLNCG01355 | 615418 | Mitochondrial DNA depletion syndrome 12 (cardiomyopathic type) |
| ZFLNCG13058 | 167870 | Panic disorder, susceptibility to |
| ZFLNCG12741 | 170390 | Andersen syndrome |
| ZFLNCG09421 | 235200 | HFE hemochromatosis, modifier of |
| ZFLNCG10279 | 601868 | Deafness, autosomal dominant 13 |
| ZFLNCG11719 | 606685 | Cardiomyopathy, dilated, 1L |
| ZFLNCG04870 | 614858 | Hypogonadotropic hypogonadism 14 with or without anosmia |
| ZFLNCG13254 | 209900 | Bardet-Biedl syndrome 1, modifier of |
| ZFLNCG10304 | 614810 | Multiple sclerosis, susceptibility to, 5 |
| ZFLNCG07430 | 204100 | Leber congenital amaurosis 2 |
| ZFLNCG12732 | 192950 | Vertical talus, congenital |
| ZFLNCG07316 | 612998 | Emery-Dreifuss muscular dystrophy 4, autosomal dominant |
| ZFLNCG10279 | 277610 | Weissenbacher-Zweymuller syndrome |
| ZFLNCG02120 | 615490 | Charcot-Marie-Tooth disease, type 2R |
| ZFLNCG08840 | 277300 | Spondylocostal dysostosis 1, autosomal recessive |
| ZFLNCG05682 | 605039 | Bohring-Opitz syndrome |
| ZFLNCG04502 | 253601 | Muscular dystrophy, limb-girdle, type 2B |