Teresa M Przytycka
Affiliation: National Institutes of Health
Wang Y, Cho D, Lee H, Fear J, Oliver B, Przytycka T. Reprogramming of regulatory network using expression uncovers sex-specific gene regulation in Drosophila. Nat Commun. 2018;9:4061 pubmed publisher
..NetREX constructed sex-specific Drosophila GRNs that, on all applied measures, outperform networks obtained from other methods indicating that NetREX is an important milestone toward building more accurate GRNs. ..
Du X, Gertz E, Wójtowicz D, Zhabinskaya D, Levens D, Benham C, et al
. Potential non-B DNA regions in the human genome are associated with higher rates of nucleotide mutation and expression variation. Nucleic Acids Res. 2014;42:12367-79 pubmed publisher
Przytycka T, Jothi R, Aravind L, Lipman D. Differences in evolutionary pressure acting within highly conserved ortholog groups. BMC Evol Biol. 2008;8:208 pubmed publisher
..In contrast, the uniformity of the selective pressure acting on the non-informational groups might allow the exchange of the genetic material via lateral gene transfer. ..
Przytycka T, Kim Y. Network integration meets network dynamics. BMC Biol. 2010;8:48 pubmed publisher
..However, combining various types of networks into one coherent large-scale dynamic model remains a formidable challenge. A recent paper in BMC Systems Biology describes a promising step in this direction. ..
Hoinka J, Berezhnoy A, Dao P, Sauna Z, Gilboa E, Przytycka T. Large scale analysis of the mutational landscape in HT-SELEX improves aptamer discovery. Nucleic Acids Res. 2015;43:5699-707 pubmed publisher
..We applied these methods to an HT-SELEX experiment developing aptamers against Interleukin 10 receptor alpha chain (IL-10RA) and experimentally confirmed our predictions thus validating our computational methods. ..
Zhang F, Chen H, Zhao L, Liu H, Przytycka T, Zheng J. Generalized logical model based on network topology to capture the dynamical trends of cellular signaling pathways. BMC Syst Biol. 2016;10 Suppl 1:7 pubmed publisher
..The proposed simulation tool provides a valuable resource for modeling cellular signaling pathways using a knowledge-based method. ..
Dao P, Hoinka J, Takahashi M, Zhou J, Ho M, Wang Y, et al
. AptaTRACE Elucidates RNA Sequence-Structure Motifs from Selection Trends in HT-SELEX Experiments. Cell Syst. 2016;3:62-70 pubmed publisher
..AptaTRACE can identify low-abundance motifs, and we show through simulations that, because of this, it could lower HT-SELEX cost and time by reducing the number of selection cycles required. ..
Kouzine F, Wójtowicz D, Baranello L, Yamane A, Nelson S, Resch W, et al
. Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome. Cell Syst. 2017;4:344-356.e7 pubmed publisher
..These results suggest that non-B DNAs contribute to the control of a variety of critical cellular and organismal processes. ..
Chen H, Yang P, Guo J, Kwoh C, Przytycka T, Zheng J. ARG-walker: inference of individual specific strengths of meiotic recombination hotspots by population genomics analysis. BMC Genomics. 2015;16 Suppl 12:S1 pubmed publisher
..In the future, it could be used to uncover the mechanisms of recombination regulation and human diseases related with recombination hotspots. ..