Bodea CA, Mitchell AA, Bloemendal A, Day-Williams AG, Runz H, Sunyaev SR. PINES: phenotype-informed tissue weighting improves prediction of pathogenic noncoding variants. Genome Biol. 2018;19(1):173. doi:10.1186/s13059-018-1546-6.

Raisner RM, Hartley PD, Meneghini MD, et al. Histone variant H2A.Z marks the 5’ ends of both active and inactive genes in euchromatin. Cell. 2005;123(2):233-48. doi:10.1016/j.cell.2005.10.002.

Ernst J, Kellis M. Chromatin-state discovery and genome annotation with ChromHMM. Nat Protoc. 2017;12(12):2478-2492. doi:10.1038/nprot.2017.124.

Guttman M, Garber M, Levin JZ, et al. Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol. 2010;28(5):503-10. doi:10.1038/nbt.1633.

Grossman SR, Shlyakhter I, Shylakhter I, et al. A composite of multiple signals distinguishes causal variants in regions of positive selection. Science. 2010;327(5967):883-6. doi:10.1126/science.1183863.

Haas BJ, Kamoun S, Zody MC, et al. Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature. 2009;461(7262):393-8. doi:10.1038/nature08358.

Guttman M, Amit I, Garber M, et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature. 2009;458(7235):223-7. doi:10.1038/nature07672.

Roussos P, Mitchell AC, Voloudakis G, et al. A role for noncoding variation in schizophrenia. Cell Rep. 2014;9(4):1417-29. doi:10.1016/j.celrep.2014.10.015.

Pombert J-F, Xu J, Smith DR, et al. Complete genome sequences from three genetically distinct strains reveal high intraspecies genetic diversity in the microsporidian Encephalitozoon cuniculi. Eukaryot Cell. 2013;12(4):503-11. doi:10.1128/EC.00312-12.