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
ZFLNCG05449 607323 Duane-radial ray syndrome
ZFLNCG01372 219200 Cutis laxa, autosomal recessive, type IIA
ZFLNCG09861 612718 Cerebral creatine deficiency syndrome 3
ZFLNCG12858 121050 Contractural arachnodactyly, congenital
ZFLNCG12907 178300 Ptosis, congenital
ZFLNCG01621 229100 Glutamate formiminotransferase deficiency
ZFLNCG12557 610093 Microphthalmia, isolated 2
ZFLNCG01080 615418 Mitochondrial DNA depletion syndrome 12 (cardiomyopathic type)
ZFLNCG08627 610828 Holoprosencephaly-7
ZFLNCG00547 219730 Ventriculomegaly with cystic kidney disease
ZFLNCG04674 159950 Spinal muscular atrophy with progressive myoclonic epilepsy
ZFLNCG05559 232220 Glycogen storage disease Ib
ZFLNCG01532 173200 Pityriasis rubra pilaris
ZFLNCG07461 609622 Short QT syndrome 3
ZFLNCG05735 261740 Glycogen storage disease of heart, lethal congenital
ZFLNCG08395 610227 Seborrhea-like dermatitis with psoriasiform elements
ZFLNCG11358 300633 Hypospadias 1, X-linked
ZFLNCG03410 162300 Multiple endocrine neoplasia IIB
ZFLNCG10755 602481 Migraine, familial hemiplegic, 2
ZFLNCG08477 227810 Fanconi-Bickel syndrome
ZFLNCG01693 114000 Caffey disease
ZFLNCG13058 264600 Pseudovaginal perineoscrotal hypospadias
ZFLNCG07651 128230 Dystonia, DOPA-responsive, with or without hyperphenylalaninemia
ZFLNCG07651 233910 Hyperphenylalaninemia, BH4-deficient, B
ZFLNCG09948 610743 Spinocerebellar ataxia, autosomal recessive 8