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
ZFLNCG05561 614063 N-acetylaspartate deficiency
ZFLNCG05957 613765 Cardiomyopathy, familial hypertrophic, 9
ZFLNCG02289 145250 Hyperpigmentation with or without hypopigmentation
ZFLNCG12733 605432 Radioulnar synostosis with amegakaryocytic thrombocytopenia 1
ZFLNCG10257 312700 Retinoschisis
ZFLNCG06743 300419 Mental retardation, X-linked 29 and others
ZFLNCG11375 227240 Skin/hair/eye pigmentation 5, dark/light eyes
ZFLNCG10706 614049 Atrial fibrillation, familial, 11
ZFLNCG02385 607476 Newfoundland rod-cone dystrophy
ZFLNCG09823 610478 Retinal cone dystrophy 4
ZFLNCG12557 610092 Microphthalmia with coloboma 3
ZFLNCG00765 171300 Pheochromocytoma
ZFLNCG00614 108600 Spastic ataxia 1, autosomal dominant
ZFLNCG04946 612998 Emery-Dreifuss muscular dystrophy 4, autosomal dominant
ZFLNCG01372 278250 Wrinkly skin syndrome
ZFLNCG08194 149730 LADD syndrome
ZFLNCG01693 166220 Osteogenesis imperfecta, type IV
ZFLNCG10171 612975 Short sleeper
ZFLNCG12405 613957 Spermatogenic failure 8
ZFLNCG03614 269160 Schizencephaly
ZFLNCG08579 177735 Pseudohypoaldosteronism type I, autosomal dominant
ZFLNCG12564 606777 GLUT1 deficiency syndrome 1, infantile onset, severe
ZFLNCG09557 612703 Microcephaly 7, primary, autosomal recessive
ZFLNCG06563 301050 Alport syndrome
ZFLNCG07084 108600 Spastic ataxia 1, autosomal dominant