Petr Novak
Petr Novak
Research Scientist
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RepeatExplorer: a Galaxy-based web server for genome-wide characterization of eukaryotic repetitive elements from next-generation sequence reads
P Novák, P Neumann, J Pech, J Steinhaisl, J Macas
Bioinformatics 29 (6), 792-793, 2013
Graph-based clustering and characterization of repetitive sequences in next-generation sequencing data
P Novák, P Neumann, J Macas
BMC bioinformatics 11, 1-12, 2010
A reference genome for pea provides insight into legume genome evolution
J Kreplak, MA Madoui, P Cápal, P Novák, K Labadie, G Aubert, PE Bayer, ...
Nature genetics 51 (9), 1411-1422, 2019
Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification
P Neumann, P Novák, N Hoštáková, J Macas
Mobile DNA 10, 1-17, 2019
TAREAN: a computational tool for identification and characterization of satellite DNA from unassembled short reads
P Novák, L Ávila Robledillo, A Koblížková, I Vrbová, P Neumann, J Macas
Nucleic acids research 45 (12), e111-e111, 2017
Repeatless and repeat-based centromeres in potato: implications for centromere evolution
Z Gong, Y Wu, A Koblížková, GA Torres, K Wang, M Iovene, P Neumann, ...
The Plant Cell 24 (9), 3559-3574, 2012
Branched chain amino acid metabolism profiles in progressive human nonalcoholic fatty liver disease
AD Lake, P Novak, P Shipkova, N Aranibar, DG Robertson, MD Reily, ...
Amino acids 47, 603-615, 2015
Selfish supernumerary chromosome reveals its origin as a mosaic of host genome and organellar sequences
MM Martis, S Klemme, AM Banaei-Moghaddam, FR Blattner, J Macas, ...
Proceedings of the National Academy of Sciences 109 (33), 13343-13346, 2012
In Depth Characterization of Repetitive DNA in 23 Plant Genomes Reveals Sources of Genome Size Variation in the Legume Tribe Fabeae
J Macas, P Novák, J Pellicer, J Čížková, A Koblížková, P Neumann, ...
PloS one 10 (11), e0143424, 2015
Agglomerative epigenetic aberrations are a common event in human breast cancer
P Novak, T Jensen, MM Oshiro, GS Watts, CJ Kim, BW Futscher
Cancer research 68 (20), 8616, 2008
Decreased hepatotoxic bile acid composition and altered synthesis in progressive human nonalcoholic fatty liver disease
AD Lake, P Novak, P Shipkova, N Aranibar, D Robertson, MD Reily, Z Lu, ...
Toxicology and applied pharmacology 268 (2), 132-140, 2013
Next Generation Sequencing Reveals Genome Downsizing in Allotetraploid Nicotiana tabacum, Predominantly through the Elimination of Paternally Derived …
S Renny-Byfield, M Chester, A Kovařík, SC Le Comber, MA Grandbastien, ...
Molecular biology and evolution 28 (10), 2843-2854, 2011
Global analysis of repetitive DNA from unassembled sequence reads using RepeatExplorer2
P Novák, P Neumann, J Macas
Nature Protocols 15 (11), 3745-3776, 2020
The adaptive endoplasmic reticulum stress response to lipotoxicity in progressive human nonalcoholic fatty liver disease
AD Lake, P Novak, RN Hardwick, B Flores-Keown, F Zhao, WT Klimecki, ...
Toxicological sciences 137 (1), 26-35, 2014
Analysis of Global and Absorption, Distribution, Metabolism, and Elimination Gene Expression in the Progressive Stages of Human Nonalcoholic Fatty Liver Disease
AD Lake, P Novak, CD Fisher, JP Jackson, RN Hardwick, DD Billheimer, ...
Drug Metabolism and Disposition 39 (10), 1954-1960, 2011
Epigenetic remodeling during arsenical-induced malignant transformation
TJ Jensen, P Novak, KE Eblin, AJ Gandolfi, BW Futscher
Carcinogenesis 29 (8), 1500-1508, 2008
Stretching the rules: monocentric chromosomes with multiple centromere domains
P Neumann, A Navratilova, E Schroeder-Reiter, A Koblížková, ...
PLoS genetics 8 (6), e1002777, 2012
Analysis of the giant genomes of Fritillaria (Liliaceae) indicates that a lack of DNA removal characterizes extreme expansions in genome size
LJ Kelly, S Renny‐Byfield, J Pellicer, J Macas, P Novák, P Neumann, ...
New Phytologist 208 (2), 596-607, 2015
Genomic repeat abundances contain phylogenetic signal
S Dodsworth, MW Chase, LJ Kelly, IJ Leitch, J Macas, P Novak, ...
Systematic biology 64 (1), 112-126, 2015
Stepwise DNA methylation changes are linked to escape from defined proliferation barriers and mammary epithelial cell immortalization
P Novak, TJ Jensen, JC Garbe, MR Stampfer, BW Futscher
Cancer research 69 (12), 5251, 2009
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