Publications

M Lexa, Monika Cechova, SH Nguyen, P Jedlicka, V Tokan, Z Kubat, R Hobza, R Kejnovsky (2022). HiC TE, a computational pipeline for HiC data analysis to study the role of repeat family interactions in the genome 3D organization. genes.

Monika Cechova, KH Miga (2022). Satellite DNAs and human sex chromosome variation. genes.

Monika Cechova (2020). Probably Correct -- Rescuing Repeats with Short and Long Reads. genes.

Monika Cechova (2020). Ten simple rules for biologists initiating a collaboration with computer scientists. genes.

Monika Cechova, Rahulsimham Vegesna, M Tomaszkiewicz, RS Harris, D Chen, S Rangavittal, P Medvedev, KD Makova. (2020). Dynamic evolution of great ape Y chromosomes. PNAS.

Monika Cechova, RS Harris, M Tomaszkiewicz, B Arbeithuber, F Chiaromonte (2019). Noise-cancelling repeat finder -- uncovering tandem repeats in error-prone long-read sequencing data. Bioinformatics.

RS Harris, Monika Cechova, KD Makova. (2019). High Satellite Repeat Turnover in Great Apes Studied with Short- and Long-Read Technologies. Mol Biol Evol.

WM Guiblet, MA Cremona, Monika Cechova, RS Harris, I Kejnovska, E Kejnovsky., KA Eckert, F Chiaromonte (2018). Long-read sequencing technology indicates genome-wide effects of non-B DNA on polymerization speed and error rate. Genome Research.

S Rangavittal, RS Harris, Monika Cechova, M Tomaszkiewicz, R Chikhi, KD Makova., P Medvedev (2017). RecoverY -- k-mer-based read classification for Y-chromosome-specific sequencing and assembly. Bioinformatics.

M Tomaszkiewicz, S Rangavittal, Monika Cechova, R Campos-Sánchez, HW Fescemyer, RS Harris, D Ye, PCM O’Brien, R Chikhi, OA Ryder, MA Ferguson-Smith, P Medvedev, KD Makova. (2016). A time- and cost-effective strategy to sequence mammalian Y Chromosomes -- an application to the de novo assembly of gorilla Y. Genome Research.

Monika Cechova, Z Kubat, R Hobza, B Vyskot (2015). Fully automated pipeline for detection of sex linked genes using RNA-Seq data. BMC Bioinformatics.

Monika Cechova, B Vyskot, E Kejnovsky. (2013). Analysis of plastid and mitochondrial DNA insertions in the nucleus (NUPTs and NUMTs) of six plant species -- size, relative age and chromosomal localization. Heredity.

E Kejnovsky., Monika Cechova, P Steflova, I Kejnovska, S Manzano, R Hobza, Z Kubat, J Kovarik, M Jamilena, B Vyskot (2013). Expansion of microsatellites on evolutionary young Y chromosome. Plos One.