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 |
|---|---|---|
| ZFLNCG08477 | 613118 | Thrombophilia due to antithrombin III deficiency |
| ZFLNCG04138 | 608516 | Unipolar depression, susceptibility to |
| ZFLNCG07931 | 104290 | Alternating hemiplegia of childhood |
| ZFLNCG09284 | 609532 | Hepatitic C virus, susceptibility to |
| ZFLNCG05449 | 147750 | IVIC syndrome |
| ZFLNCG05515 | 611638 | Microphthalmia with coloboma 5 |
| ZFLNCG03410 | 607475 | Bothnia retinal dystrophy |
| ZFLNCG10268 | 209900 | Bardet-Biedl syndrome 1, modifier of |
| ZFLNCG07651 | 103470 | Waardenburg syndrome/albinism, digenic |
| ZFLNCG10279 | 609706 | Deafness, autosomal recessive 53 |
| ZFLNCG04372 | 206700 | Gillespie syndrome |
| ZFLNCG09576 | 609637 | Holoprosencephaly-5 |
| ZFLNCG08615 | 604129 | Epidermolysis bullosa pruriginosa |
| ZFLNCG06108 | 261650 | PEPCK deficiency, mitochondrial |
| ZFLNCG06953 | 615849 | Culler-Jones syndrome |
| ZFLNCG13186 | 262850 | Alpha-2-plasmin inhibitor deficiency |
| ZFLNCG12405 | 612964 | Premature ovarian failure 7 |
| ZFLNCG05957 | 611705 | Myopathy, early-onset, with fatal cardiomyopathy |
| ZFLNCG03410 | 245300 | Kuru, susceptibility to |
| ZFLNCG03419 | 212065 | Congenital disorder of glycosylation, type Ia |
| ZFLNCG05097 | 613843 | Leber congenital amaurosis 15 |
| ZFLNCG07994 | 613013 | Neuroblastoma with Hirschsprung disease |
| ZFLNCG10816 | 248190 | Hypomagnesemia 5, renal, with ocular involvement |
| ZFLNCG03410 | 142623 | Hirschsprung disease, susceptibility to, 1 |
| ZFLNCG00237 | 600791 | Deafness, autosomal recessive 4, with enlarged vestibular aqueduct |