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 |
|---|---|---|
| ZFLNCG06931 | 269160 | Schizencephaly |
| ZFLNCG05701 | 122000 | Corneal dystrophy, posterior polymorphous, 1 |
| ZFLNCG04393 | 613223 | Leprosy, susceptibility to, 5 |
| ZFLNCG01356 | 261670 | Glycogen storage disease X |
| ZFLNCG04372 | 604229 | Peters anomaly |
| ZFLNCG12302 | 609637 | Holoprosencephaly-5 |
| ZFLNCG04137 | 608516 | Unipolar depression, susceptibility to |
| ZFLNCG08962 | 610227 | Seborrhea-like dermatitis with psoriasiform elements |
| ZFLNCG08626 | 253290 | Multiple pterygium syndrome, lethal type |
| ZFLNCG10609 | 607200 | Thryoid dyshormonogenesis 6 |
| ZFLNCG01080 | 609283 | Progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant 2 |
| ZFLNCG13488 | 615135 | Maple syrup urine disease, mild variant |
| ZFLNCG11358 | 313200 | Spinal and bulbar muscular atrophy of Kennedy |
| ZFLNCG00804 | 248190 | Hypomagnesemia 5, renal, with ocular involvement |
| ZFLNCG00547 | 615458 | Microcornea, myopic chorioretinal atrophy, and telecanthus |
| ZFLNCG12168 | 209300 | Atransferrinemia |
| ZFLNCG11625 | 613837 | Leber congenital amaurosis 11 |
| ZFLNCG10966 | 136800 | Corneal dystrophy, Fuchs endothelial, 1 |
| ZFLNCG03648 | 112100 | Blood group, Yt system |
| ZFLNCG09641 | 610093 | Microphthalmia, isolated 2 |
| ZFLNCG08726 | 140350 | Hawkinsinuria |
| ZFLNCG09601 | 600802 | SCID, autosomal recessive, T-negative/B-positive type |
| ZFLNCG08615 | 132000 | EBD, Bart type |
| ZFLNCG12983 | 300534 | Mental retardation, X-linked, syndromic, Claes-Jensen type |
| ZFLNCG10916 | 601238 | Ataxia, cerebellar, Cayman type |