Genomic Characterization of Large Heterochromatic Gaps in the Human Genome Assembly. - Nicolas Altemose; Karen H. Miga; Mauro Maggioni; Huntington F. Willard (PLoS Comput. Biol., 2014)

The UCSC Genome Browser database: 2015 update. - Kate R. Rosenbloom; Joel Armstrong; Galt P. Barber; Jonathan Casper; Hiram Clawson; Mark Diekhans; Timothy R. Dreszer; Pauline A. Fujita; Luvina Guruvadoo; Maximilian Haeussler; Rachel A. Harte; Steven G. Heitner; et al. (Nucleic Acids Res., 2015)

Alpha-CENTAURI: assessing novel centromeric repeat sequence variation with long read sequencing. - Volkan Sevim; Ali Bashir; Chen-Shan Chin; Karen H. Miga (Bioinform., 2016)

TandemTools: mapping long reads and assessing/improving assembly quality in extra-long tandem repeats. - Alla Mikheenko; Andrey V. Bzikadze; Alexey A. Gurevich; Karen H. Miga; Pavel A. Pevzner (Bioinform., 2020)