A. Rasim Barutcu

Abstract Non-homologous chromosomal contacts (NHCCs) between different chromosomes participate considerably in gene and genome regulation. Due to analytical challenges, NHCCs are currently considered as singular, stochastic events, and their extent and fundamental principles across cell types remain controversial. We develop a supervised and unsupervised learning algorithm, termed Signature, to call NHCCs in Hi-C datasets to advance our understanding of genome topology.

Ahn E.Y. DeKelver R.C. Lo M.C. Nguyen T.A. Matsuura S. Boyapati A. Pandit S. Fu X.D. Zhang D.E. SON controls cell-cycle progression by coordinated regulation of RNA splicing. Mol. Cell. 2011; 42: 185-198 Amit M. Donyo M. Hollander D. Goren A. Kim E. Gelfman S. Lev-Maor G. Burstein D. Schwartz S. Postolsky B. et al. Differential GC content between exons and introns establishes distinct strategies of splice-site recognition. Cell Rep.

Recently, it has been shown that lincRNA loci influence the expression of their neighboring protein-coding genes [7, 22, 41–43]. However, the mechanisms of this regulation are largely uncharacterized. Here, we selected candidate lincRNAs based on their potential cis-regulatory function and directly tested the enhancer capacity of their loci at 50-bp resolution using MPRA technology.