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