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
ZFLNCG11719 601287 Muscular dystrophy, limb-girdle, type 2F
ZFLNCG04372 120200 Coloboma, ocular
ZFLNCG05711 601003 Brody myopathy
ZFLNCG02067 186570 Tarsal-carpal coalition syndrome
ZFLNCG05331 610612 Leber congenital amaurosis 12
ZFLNCG03536 615378 Atrial fibrillation, familial, 14
ZFLNCG09621 245570 Epilepsy, focal, with speech disorder and with or without mental retardation
ZFLNCG00470 601369 Deafness, autosomal dominant 9
ZFLNCG06627 108600 Spastic ataxia 1, autosomal dominant
ZFLNCG08626 608930 Myasthenic syndrome, congenital, 1B, fast-channel
ZFLNCG12405 264080 Progesterone resistance
ZFLNCG06494 607236 HARP syndrome
ZFLNCG10706 612965 46XY sex reversal 3
ZFLNCG12294 265120 Surfactant metabolism dysfunction, pulmonary, 1
ZFLNCG05577 180000 Retinal arteries, tortuosity of
ZFLNCG00762 122880 Craniofacial-deafness-hand syndrome
ZFLNCG12302 300088 Epileptic encephalopathy, early infantile, 9
ZFLNCG00512 608747 Growth retardation with deafness and mental retardation due to IGF1 deficiency
ZFLNCG12831 615419 Hypotonia, infantile, with psychomotor retardation and characteristic facies
ZFLNCG06945 612938 Growth retardation, developmental delay, facial dysmorphism
ZFLNCG02042 613980 Atrial fibrillation, familial, 9
ZFLNCG05559 261650 PEPCK deficiency, mitochondrial
ZFLNCG10113 233690 Chronic granulomatous disease, autosomal, due to deficiency of CYBA
ZFLNCG03016 614402 Microphthalmia, syndromic 11
ZFLNCG09641 610092 Microphthalmia with coloboma 3