Publications

2024

RNA visualization and single-cell transcriptomics: methods and applications. Andrysik Z, Donovan MG. Transcription. 2023 Jun-Oct;14(3-5):89-91. doi: 10.1080/21541264.2023.2286761.

2023

Triplication of the interferon receptor locus contributes to hallmarks of Down syndrome in a mouse model. Waugh KA, Minter R, Baxter J, Chi C, Galbraith MD, Tuttle KD, Eduthan NP, Kinning KT, Andrysik Z, Araya P, Dougherty H, Dunn LN, Ludwig M, Schade KA, Tracy D, Smith KP, Granrath RE, Busquet N, Khanal S, Anderson RD, Cox LL, Estrada BE, Rachubinski AL, Lyford HR, Britton EC, Fantauzzo KA, Orlicky DJ, Matsuda JL, Song K, Cox TC, Sullivan KD, Espinosa JM. Nat Genet. 2023 Jun;55(6):1034-1047. doi: 10.1038/s41588-023-01399-7.

FAM193A is a positive regulator of p53 activity. Szwarc MM, Guarnieri AL, Joshi M, Duc HN, Laird MC, Pandey A, Khanal S, Dohm E, Bui AK, Sullivan KD, Galbraith MD, Andrysik Z, Espinosa JM. Cell Rep. 2023 Mar 28;42(3):112230. doi: 10.1016/j.celrep.2023.112230.

Cell differentiation modifies the p53 transcriptional program through a combination of gene silencing and constitutive transactivation. Tatavosian R, Donovan MG, Galbraith MD, Duc HN, Szwarc MM, Joshi MU, Frieman A, Bilousova G, Cao Y, Smith KP, Song K, Rachubinski AL, Andrysik Z, Espinosa JM. Cell Death Differ. 2023 Apr;30(4):952-965. doi: 10.1038/s41418-023-01113-4.

2022

PPM1D suppresses p53-dependent transactivation and cell death by inhibiting the Integrated Stress Response. Andrysik Z, Sullivan KD, Kieft JS, Espinosa JM. Nat Commun. 2022 Dec 1;13(1):7400. doi: 10.1038/s41467-022-35089-5.

Inhibition of Aryl Hydrocarbon Receptor (AhR) Expression Disrupts Cell Proliferation and Alters Energy Metabolism and Fatty Acid Synthesis in Colon Cancer Cells. Karasová M, Procházková J, Tylichová Z, Fedr R, Ciganek M, Machala M, Dvořák Z, Vyhlídalová B, Zůvalová I, Ehrmann J, Bouchal J, Andrysík Z, Vondráček J. Cancers (Basel). 2022 Aug 31;14(17):4245. doi: 10.3390/cancers14174245.

2021

Global Analyses to Identify Direct Transcriptional Targets of p53. Galbraith MD, Andrysik Z, Sullivan KD, Espinosa JM. Methods Mol Biol. 2021;2267:19-56. doi: 10.1007/978-1-0716-1217-0_3

Multi-omics analysis reveals contextual tumor suppressive and oncogenic gene modules within the acute hypoxic response. Andrysik Z, Bender H, Galbraith MD, Espinosa JM. Nat Commun. 2021 Mar 2;12(1):1375. doi: 10.1038/s41467-021-21687-2.

A prolonged exposure of human lung carcinoma epithelial cells to benzo[a]pyrene induces p21-dependent epithelial-to-mesenchymal transition (EMT)-like phenotype. Hýžďalová M, Procházková J, Strapáčová S, Svržková L, Vacek O, Fedr R, Andrysík Z, Hrubá E, Líbalová H, Kléma J, Topinka J, Mašek J, Souček K, Vondráček J, Machala M. Chemosphere. 2021 Jan;263:128126. doi: 10.1016/j.chemosphere.2020.128126.

2020

JAK1 Inhibition Blocks Lethal Immune Hypersensitivity in a Mouse Model of Down Syndrome. Tuttle KD, Waugh KA, Araya P, Minter R, Orlicky DJ, Ludwig M, Andrysik Z, Burchill MA, Tamburini BAJ, Sempeck C, Smith K, Granrath R, Tracy D, Baxter J, Espinosa JM, Sullivan KD. Cell Rep. 2020 Nov 17;33(7):108407. doi: 10.1016/j.celrep.2020.108407.

Antimigraine Drug Avitriptan Is a Ligand and Agonist of Human Aryl Hydrocarbon Receptor That Induces CYP1A1 in Hepatic and Intestinal Cells. Vyhlídalová B, Krasulová K, Pečinková P, Poulíková K, Vrzal R, Andrysík Z, Chandran A, Mani S, Dvorak Z. Int J Mol Sci. 2020 Apr 17;21(8):2799. doi: 10.3390/ijms21082799.

Nutlin-Induced Apoptosis Is Specified by a Translation Program Regulated by PCBP2 and DHX30. Rizzotto D, Zaccara S, Rossi A, Galbraith MD, Andrysik Z, Pandey A, Sullivan KD, Quattrone A, Espinosa JM, Dassi E, Inga A. Cell Rep. 2020 Mar 31;30(13):4355-4369.e6. doi: 10.1016/j.celrep.2020.03.011.

2019

Transcriptional Responses to IFN-γ Require Mediator Kinase-Dependent Pause Release and Mechanistically Distinct CDK8 and CDK19 Functions. Steinparzer I, Sedlyarov V, Rubin JD, Eislmayr K, Galbraith MD, Levandowski CB, Vcelkova T, Sneezum L, Wascher F, Amman F, Kleinova R, Bender H, Andrysik Z, Espinosa JM, Superti-Furga G, Dowell RD, Taatjes DJ, Kovarik P. Mol Cell. 2019 Nov 7;76(3):485-499.e8. doi: 10.1016/j.molcel.2019.07.034.

2018

ΔNp63α Suppresses TGFB2 Expression and RHOA Activity to Drive Cell Proliferation in Squamous Cell Carcinomas. Abraham CG, Ludwig MP, Andrysik Z, Pandey A, Joshi M, Galbraith MD, Sullivan KD, Espinosa JM. Cell Rep. 2018 Sep 18;24(12):3224-3236. doi: 10.1016/j.celrep.2018.08.058. PMID: 30232004 Free PMC article.

Adaptive changes in global gene expression profile of lung carcinoma A549 cells acutely exposed to distinct types of AhR ligands. Procházková J, Strapáčová S, Svržková L, Andrysík Z, Hýžďalová M, Hrubá E, Pěnčíková K, Líbalová H, Topinka J, Kléma J, Espinosa JM, Vondráček J, Machala M. Toxicol Lett. 2018 Aug;292:162-174. doi: 10.1016/j.toxlet.2018.04.024.

Autophagy Inhibition Mediates Apoptosis Sensitization in Cancer Therapy by Relieving FOXO3a Turnover.Fitzwalter BE, Towers CG, Sullivan KD, Andrysik Z, Hoh M, Ludwig M, O'Prey J, Ryan KM, Espinosa JM, Morgan MJ, Thorburn A. Dev Cell. 2018 Mar 12;44(5):555-565.e3. doi: 10.1016/j.devcel.2018.02.014.

Mechanisms of transcriptional regulation by p53. Sullivan KD, Galbraith MD, Andrysik Z, Espinosa JM. Cell Death Differ. 2018 Jan;25(1):133-143. doi: 10.1038/cdd.2017.174.

2017

CDK8 Kinase Activity Promotes Glycolysis. Galbraith MD, Andrysik Z, Pandey A, Hoh M, Bonner EA, Hill AA, Sullivan KD, Espinosa JM. Cell Rep. 2017 Nov 7;21(6):1495-1506. doi: 10.1016/j.celrep.2017.10.058.

Identification of a core TP53 transcriptional program with highly distributed tumor suppressive activity. Andrysik Z, Galbraith MD, Guarnieri AL, Zaccara S, Sullivan KD, Pandey A, MacBeth M, Inga A, Espinosa JM. Genome Res. 2017 Oct;27(10):1645-1657. doi: 10.1101/gr.220533.117.