Mario Medvedovic

Mario Medvedovic

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Mario Medvedovic

Publications by authors named "Mario Medvedovic"

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Interferon-complement loop in transplant-associated thrombotic microangiopathy.

Blood Adv 2020 Mar;4(6):1166-1177

Division of Bone Marrow Transplantation and Immune Deficiency, Cancer and Blood Disease Institute, Cincinnati Children's Hospital Medical Center, Cincinnati, OH.

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http://dx.doi.org/10.1182/bloodadvances.2020001515DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7094010PMC
March 2020

Cheminformatics Tools for Analyzing and Designing Optimized Small-Molecule Collections and Libraries.

Cell Chem Biol 2019 05 4;26(5):765-777.e3. Epub 2019 Apr 4.

HMS LINCS and Druggable Genome Centers, Laboratory of Systems Pharmacology, Harvard Program in Therapeutic Science, Harvard Medical School, Warren Alpert 444, 200 Longwood Avenue, Boston, MA 02115, USA; Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.chembiol.2019.02.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6526536PMC
May 2019

GREIN: An Interactive Web Platform for Re-analyzing GEO RNA-seq Data.

Sci Rep 2019 05 20;9(1):7580. Epub 2019 May 20.

Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati, 3223 Eden Avenue, Cincinnati, OH, 45220, USA.

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http://dx.doi.org/10.1038/s41598-019-43935-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6527554PMC
May 2019

An Organoid-Based Preclinical Model of Human Gastric Cancer.

Cell Mol Gastroenterol Hepatol 2019 20;7(1):161-184. Epub 2018 Sep 20.

Department of Pathology and Lab Medicine, University of Cincinnati College of Medicine, Cincinnati, Ohio. Electronic address:

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http://dx.doi.org/10.1016/j.jcmgh.2018.09.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6279812PMC
April 2019

ChIAPoP: a new tool for ChIA-PET data analysis.

Nucleic Acids Res 2019 04;47(7):e37

Division of Biostatistics and Bioinformatics, Department of Environmental Health, College of Medicine, University of Cincinnati, Cincinnati, OH 45267, USA.

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http://dx.doi.org/10.1093/nar/gkz062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6468250PMC
April 2019

Chromium disrupts chromatin organization and CTCF access to its cognate sites in promoters of differentially expressed genes.

Epigenetics 2018 3;13(4):363-375. Epub 2018 May 3.

a Department of Environmental Health and Center for Environmental Genetics , University of Cincinnati College of Medicine , Cincinnati , Ohio , United State.

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http://dx.doi.org/10.1080/15592294.2018.1454243DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6140807PMC
February 2019

The N-Methyladenosine mRNA Methylase METTL3 Controls Cardiac Homeostasis and Hypertrophy.

Circulation 2019 01;139(4):533-545

Department of Physiology and Cell Biology (L.E.D., F.A.), Dorothy M. Davis Heart and Lung Research Institute, The Ohio State University, Columbus.

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http://dx.doi.org/10.1161/CIRCULATIONAHA.118.036146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6340720PMC
January 2019

Interleukin-22 levels are increased in gastrointestinal graft--host disease in children.

Haematologica 2018 10 17;103(10):e480-e482. Epub 2018 May 17.

Division of Bone Marrow Transplant and Immune Deficiency, Cincinnati Children's Hospital Medical Center, OH, USA.

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http://dx.doi.org/10.3324/haematol.2017.174771DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6165817PMC
October 2018

NBCe1 Na-HCO3 cotransporter ablation causes reduced apoptosis following cardiac ischemia-reperfusion injury .

World J Cardiol 2018 Sep;10(9):97-109

Department of Molecular Genetics, Biochemistry and Microbiology, University of Cincinnati, College of Medicine, Cincinnati, OH 45267-0524, United States.

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http://www.wjgnet.com/1949-8462/full/v10/i9/97.htm
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http://dx.doi.org/10.4330/wjc.v10.i9.97DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6189072PMC
September 2018

Ultra-Deep Genomic Sequencing of HCV NS5A Resistance-Associated Substitutions in HCV/HIV Coinfected Patients.

Dig Dis Sci 2018 03 12;63(3):645-652. Epub 2018 Jan 12.

University of Cincinnati College of Medicine, 231 Albert Sabin Way, Cincinnati, OH, 45267-0595, USA.

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http://link.springer.com/10.1007/s10620-017-4895-1
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http://dx.doi.org/10.1007/s10620-017-4895-1DOI Listing
March 2018

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Authors:
Alexandra B Keenan Sherry L Jenkins Kathleen M Jagodnik Simon Koplev Edward He Denis Torre Zichen Wang Anders B Dohlman Moshe C Silverstein Alexander Lachmann Maxim V Kuleshov Avi Ma'ayan Vasileios Stathias Raymond Terryn Daniel Cooper Michele Forlin Amar Koleti Dusica Vidovic Caty Chung Stephan C Schürer Jouzas Vasiliauskas Marcin Pilarczyk Behrouz Shamsaei Mehdi Fazel Yan Ren Wen Niu Nicholas A Clark Shana White Naim Mahi Lixia Zhang Michal Kouril John F Reichard Siva Sivaganesan Mario Medvedovic Jaroslaw Meller Rick J Koch Marc R Birtwistle Ravi Iyengar Eric A Sobie Evren U Azeloglu Julia Kaye Jeannette Osterloh Kelly Haston Jaslin Kalra Steve Finkbiener Jonathan Li Pamela Milani Miriam Adam Renan Escalante-Chong Karen Sachs Alex Lenail Divya Ramamoorthy Ernest Fraenkel Gavin Daigle Uzma Hussain Alyssa Coye Jeffrey Rothstein Dhruv Sareen Loren Ornelas Maria Banuelos Berhan Mandefro Ritchie Ho Clive N Svendsen Ryan G Lim Jennifer Stocksdale Malcolm S Casale Terri G Thompson Jie Wu Leslie M Thompson Victoria Dardov Vidya Venkatraman Andrea Matlock Jennifer E Van Eyk Jacob D Jaffe Malvina Papanastasiou Aravind Subramanian Todd R Golub Sean D Erickson Mohammad Fallahi-Sichani Marc Hafner Nathanael S Gray Jia-Ren Lin Caitlin E Mills Jeremy L Muhlich Mario Niepel Caroline E Shamu Elizabeth H Williams David Wrobel Peter K Sorger Laura M Heiser Joe W Gray James E Korkola Gordon B Mills Mark LaBarge Heidi S Feiler Mark A Dane Elmar Bucher Michel Nederlof Damir Sudar Sean Gross David F Kilburn Rebecca Smith Kaylyn Devlin Ron Margolis Leslie Derr Albert Lee Ajay Pillai

Cell Syst 2018 01 29;6(1):13-24. Epub 2017 Nov 29.

NIH, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1016/j.cels.2017.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5799026PMC
January 2018

MicroRNA networks associated with active systemic juvenile idiopathic arthritis regulate CD163 expression and anti-inflammatory functions in macrophages through two distinct mechanisms.

J Leukoc Biol 2018 01 29;103(1):71-85. Epub 2017 Dec 29.

Division of Rheumatology, Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, Ohio, USA.

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http://dx.doi.org/10.1002/JLB.2A0317-107RDOI Listing
January 2018

GRcalculator: an online tool for calculating and mining dose-response data.

BMC Cancer 2017 Oct 24;17(1):698. Epub 2017 Oct 24.

LINCS-BD2K DCIC, Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati, Cincinnati, OH, 45221, USA.

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http://dx.doi.org/10.1186/s12885-017-3689-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5655815PMC
October 2017

RNA SEQ Analysis Indicates that the AE3 Cl/HCO Exchanger Contributes to Active Transport-Mediated CO Disposal in Heart.

Sci Rep 2017 08 4;7(1):7264. Epub 2017 Aug 4.

Department of Molecular Genetics, Biochemistry and Microbiology, University of Cincinnati College of Medicine, Cincinnati, Ohio, 45267, USA.

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http://dx.doi.org/10.1038/s41598-017-07585-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5544674PMC
August 2017

Genetic susceptibility to toxicologic lung responses among inbred mouse strains following exposure to carbon nanotubes and profiling of underlying gene networks.

Toxicol Appl Pharmacol 2017 07 19;327:59-70. Epub 2017 Apr 19.

University of Cincinnati College of Medicine, Department of Environmental Health, 160 Panzeca Way, Cincinnati, OH 45267, United States. Electronic address:

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http://dx.doi.org/10.1016/j.taap.2017.04.019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5543715PMC
July 2017

Characterization of HCV NS3 Protease Variants in HCV/HIV-Coinfected Patients by Ultra-Deep Sequence Analysis: Relationship with Hepatic Fibrosis.

J Acquir Immune Defic Syndr 2017 Mar;74(3):353-358

*Division of Digestive Diseases, University of Cincinnati College of Medicine, Cincinnati, OH; †Department of Environmental Health, University of Cincinnati, Cincinnati, OH; and ‡Department of Pathology, Center for Liver Diseases, Inova Fairfax Hospital, Falls Church, VA.

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http://dx.doi.org/10.1097/QAI.0000000000001256DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5303138PMC
March 2017

DNA methylome changes by estradiol benzoate and bisphenol A links early-life environmental exposures to prostate cancer risk.

Epigenetics 2016 09 14;11(9):674-689. Epub 2016 Jul 14.

a Department of Environmental Health , University of Cincinnati College of Medicine , Cincinnati , OH , USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5048723PMC
http://dx.doi.org/10.1080/15592294.2016.1208891DOI Listing
September 2016

Reprogramming of the Epigenome by MLL1 Links Early-Life Environmental Exposures to Prostate Cancer Risk.

Mol Endocrinol 2016 Aug 24;30(8):856-71. Epub 2016 May 24.

Center for Translational Cancer Research (Q.W., L.S.T., R.L.Y.W., C.L.W.), Institute of Biosciences and Technology, Texas A&M University System Health Science Center, and Department of Molecular and Cellular Biology (C.E.F., C.C., B.W.O.), Baylor College of Medicine, Houston, Texas 77030; Department of Environmental Health (M.M., J.C., S.-m.H.), University of Cincinnati College of Medicine, Cincinnati, Ohio 45267; Department of Epigenetics and Molecular Carcinogenesis (J.S.), University of Texas MD Anderson Cancer Center, Smithville, Texas 78957; and Department of Biochemistry and Molecular Genetics (A.S.), Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60611.

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http://dx.doi.org/10.1210/me.2015-1310DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4965842PMC
August 2016

Disruption of Ah Receptor Signaling during Mouse Development Leads to Abnormal Cardiac Structure and Function in the Adult.

PLoS One 2015 10;10(11):e0142440. Epub 2015 Nov 10.

Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati College of Medicine, Cincinnati, Ohio 45267, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0142440PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4640841PMC
June 2016

Loss of IκB kinase β promotes myofibroblast transformation and senescence through activation of the ROS-TGFβ autocrine loop.

Protein Cell 2016 05 5;7(5):338-50. Epub 2016 Mar 5.

Department of Environmental Health and Center of Environmental Genetics, University of Cincinnati Medical Center, Cincinnati, OH, 45267, USA.

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http://dx.doi.org/10.1007/s13238-015-0241-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4853320PMC
May 2016

Ah Receptor Activation by Dioxin Disrupts Activin, BMP, and WNT Signals During the Early Differentiation of Mouse Embryonic Stem Cells and Inhibits Cardiomyocyte Functions.

Toxicol Sci 2016 Feb 15;149(2):346-57. Epub 2015 Nov 15.

Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati College of Medicine, 160 Panzeca Way, Cincinnati, Ohio, 45267

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https://academic.oup.com/toxsci/article-lookup/doi/10.1093/t
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http://dx.doi.org/10.1093/toxsci/kfv246DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4900218PMC
February 2016

Model reduction and parameter estimation of non-linear dynamical biochemical reaction networks.

IET Syst Biol 2016 Feb;10(1):10-6

Department of Environmental Health, Laboratory for Statistical Genomics and Systems Biology, University of Cincinnati College of Medicine, 3223 Eden Ave. ML56, Cincinnati, OH 45267-0056, USA.

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http://dx.doi.org/10.1049/iet-syb.2015.0034DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4786080PMC
February 2016

Bisphenol A Disrupts HNF4α-Regulated Gene Networks Linking to Prostate Preneoplasia and Immune Disruption in Noble Rats.

Endocrinology 2016 Jan 23;157(1):207-19. Epub 2015 Oct 23.

Department of Environmental Health (H.-M.L., S.-M.H., J.C., M.M., N.N.C.T.), Center for Environmental Genetics (H.-M.L., S.-M.H., J.C., M.M., N.N.C.T.), Cincinnati Cancer Center (S.-M.H., M.M., N.N.C.T.), University of Cincinnati College of Medicine, Cincinnati, Ohio 45267; and Cincinnati Veteran Affairs Hospital Medical Center (S.-M.H.), Cincinnati, Ohio 45220.

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https://academic.oup.com/endo/article-lookup/doi/10.1210/en.
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http://dx.doi.org/10.1210/en.2015-1363DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4701889PMC
January 2016

Exposure of Human Prostaspheres to Bisphenol A Epigenetically Regulates SNORD Family Noncoding RNAs via Histone Modification.

Endocrinology 2015 Nov 6;156(11):3984-95. Epub 2015 Aug 6.

Department of Environmental Health (S.-M.H., A.C., H.-M.L., X.Zhu, J.C., X.Zha., M.M., Y.-K.L.), Center for Environmental Genetics (S.-M.H., A.C., H.-M.L., X.Zhu, J.C., X.Zha., M.M., Y.-K.L.), University of Cincinnati Medical Center, Cincinnati Cancer Center (S.-M.H., M.M., Y.-K.L.), Cincinnati, Ohio 45267; and Cincinnati Veteran Affairs Hospital Medical Center (S.-M.H.), Cincinnati, Ohio 45220; and Department of Urology (W.-Y.H., G.-B.S., G.S.P.), College of Medicine, and University of Illinois Cancer Center (W.-Y.H., G.-B.S., G.S.P.), University of Illinois at Chicago, Chicago, Illinois 60612.

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http://dx.doi.org/10.1210/en.2015-1067DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4606748PMC
November 2015

Identification of secretaglobin Scgb2a1 as a target for developmental reprogramming by BPA in the rat prostate.

Epigenetics 2015 ;10(2):127-34

a Center for Translational Cancer Research; Institute of Biosciences and Technology ; The Texas A&M University System Health Science Center ; Houston , TX USA.

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http://dx.doi.org/10.1080/15592294.2015.1009768DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4623267PMC
October 2015

Formaldehyde-Assisted Isolation of Regulatory Elements (FAIRE) analysis uncovers broad changes in chromatin structure resulting from hexavalent chromium exposure.

PLoS One 2014 16;9(5):e97849. Epub 2014 May 16.

Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati College of Medicine, Cincinnati, Ohio, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0097849PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4023961PMC
August 2015

Targeting GPR30 with G-1: a new therapeutic target for castration-resistant prostate cancer.

Endocr Relat Cancer 2014 6;21(6):903-14. Epub 2014 Oct 6.

Department of Environmental HealthUniversity of Cincinnati Medical Center, Room 128 Kettering Complex, Cincinnati, Ohio 45267-0056, USADepartment of Pathology and Laboratory MedicineUniversity of Cincinnati Medical Center, Cincinnati, Ohio, USADepartment of PathologyMassachusetts General Hospital and Harvard Medical School, Boston, Massachusetts, USADepartment of MedicineCenter for Pharmacogenomics, Washington University School of Medicine, St Louis, Missouri, USACenter for Environmental GeneticsUniversity of Cincinnati Medical Center, Cincinnati, Ohio, USADepartment of UrologyUniversity of Washington, Seattle, Washington, USACincinnati Veterans Affairs Medical CenterCincinnati, Ohio, USACincinnati Cancer CenterCincinnati, Ohio, USA Department of Environmental HealthUniversity of Cincinnati Medical Center, Room 128 Kettering Complex, Cincinnati, Ohio 45267-0056, USADepartment of Pathology and Laboratory MedicineUniversity of Cincinnati Medical Center, Cincinnati, Ohio, USADepartment of PathologyMassachusetts General Hospital and Harvard Medical School, Boston, Massachusetts, USADepartment of MedicineCenter for Pharmacogenomics, Washington University School of Medicine, St Louis, Missouri, USACenter for Environmental GeneticsUniversity of Cincinnati Medical Center, Cincinnati, Ohio, USADepartment of UrologyUniversity of Washington, Seattle, Washington, USACincinnati Veterans Affairs Medical CenterCincinnati, Ohio, USACincinnati Cancer CenterCincinnati, Ohio, USA Department of Environmental HealthUniversity of Cincinnati Medical Center, Room 128 Kettering Complex, Cincinnati, Ohio 45267-0056, USADepartment of Pathology and Laboratory MedicineUniversity of Cincinnati Medical Center, Cincinnati, Ohio, USADepartment of PathologyMassachusetts General Hospital and Harvard Medical School, Boston, Massachusetts, USADepartment of MedicineCenter for Pharmacogenomics, Washington University School of Medicine, St Louis, Missouri, USACenter for Environmental GeneticsUniversity of

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http://dx.doi.org/10.1530/ERC-14-0402DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4233119PMC
June 2015

SERPINB3/B4 contributes to early inflammation and barrier dysfunction in an experimental murine model of atopic dermatitis.

J Invest Dermatol 2015 Jan 11;135(1):160-169. Epub 2014 Aug 11.

Division of Asthma Research, Cincinnati Children's Hospital Medical Center, Department of Pediatrics, University of Cincinnati, Cincinnati, Ohio, USA. Electronic address:

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http://dx.doi.org/10.1038/jid.2014.353DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4268075PMC
January 2015

Sex- and tissue-specific methylome changes in brains of mice perinatally exposed to lead.

Neurotoxicology 2015 Jan 18;46:92-100. Epub 2014 Dec 18.

Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA.

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http://dx.doi.org/10.1016/j.neuro.2014.12.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4339411PMC
January 2015

Expression of signaling components in embryonic eyelid epithelium.

PLoS One 2014 3;9(2):e87038. Epub 2014 Feb 3.

Department of Environmental Health, College of Medicine, University of Cincinnati, Cincinnati, Ohio, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0087038PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3911929PMC
December 2014

Stratified randomization controls better for batch effects in 450K methylation analysis: a cautionary tale.

Front Genet 2014 13;5:354. Epub 2014 Oct 13.

Department of Biostatistics, Graduate School of Public Health, University of Pittsburgh Pittsburgh, PA, USA ; Department of Human Genetics, Graduate School of Public Health, University of Pittsburgh Pittsburgh, PA, USA.

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http://dx.doi.org/10.3389/fgene.2014.00354DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4195366PMC
October 2014

SPDEF inhibits prostate carcinogenesis by disrupting a positive feedback loop in regulation of the Foxm1 oncogene.

PLoS Genet 2014 Sep 25;10(9):e1004656. Epub 2014 Sep 25.

Division of Pulmonary Biology, the Perinatal Institute of Cincinnati Children's Research Foundation, Cincinnati, Ohio, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1004656DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4177813PMC
September 2014

Genome-wide signatures of transcription factor activity: connecting transcription factors, disease, and small molecules.

PLoS Comput Biol 2013 5;9(9):e1003198. Epub 2013 Sep 5.

Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, Ohio, United States of America.

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http://dx.plos.org/10.1371/journal.pcbi.1003198
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http://dx.doi.org/10.1371/journal.pcbi.1003198DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3764016PMC
April 2014

Long-term exposure to low-concentrations of Cr(VI) induce DNA damage and disrupt the transcriptional response to benzo[a]pyrene.

Toxicology 2014 Feb 26;316:14-24. Epub 2013 Dec 26.

Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati College of Medicine, 3223 Eden Avenue, Cincinnati, OH 45267, United States. Electronic address:

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http://dx.doi.org/10.1016/j.tox.2013.12.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3945963PMC
February 2014

Expressomal approach for comprehensive analysis and visualization of ligand sensitivities of xenoestrogen responsive genes.

Proc Natl Acad Sci U S A 2013 Oct 23;110(41):16508-13. Epub 2013 Sep 23.

Molecular Profiling Laboratory, Massachusetts General Hospital Center for Cancer Research, Charlestown, MA 02129.

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http://dx.doi.org/10.1073/pnas.1315929110DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3799318PMC
October 2013

Deciphering gene expression program of MAP3K1 in mouse eyelid morphogenesis.

Dev Biol 2013 Feb 30;374(1):96-107. Epub 2012 Nov 30.

Department of Environmental Health, University of Cincinnati College of Medicine, 3223 Eden Avenue, Kettering Laboratory, Suite 410, P.O. Box 670056, Cincinnati, OH 45267-0056, USA.

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http://dx.doi.org/10.1016/j.ydbio.2012.11.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3549005PMC
February 2013

Loss of the miR-144/451 cluster impairs ischaemic preconditioning-mediated cardioprotection by targeting Rac-1.

Cardiovasc Res 2012 May 21;94(2):379-90. Epub 2012 Feb 21.

Department of Pharmacology and Cell Biophysics, University of Cincinnati College of Medicine, Cincinnati, OH 45267-0575, USA.

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http://dx.doi.org/10.1093/cvr/cvs096DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3331614PMC
May 2012

Epigenetic changes with dietary soy in cynomolgus monkeys.

PLoS One 2011 25;6(10):e26791. Epub 2011 Oct 25.

Center for Genomics and Personalized Medicine Research, Wake Forest School of Medicine, Winston-Salem, North Carolina, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0026791PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3201974PMC
March 2012

Identification of a NF-κB cardioprotective gene program: NF-κB regulation of Hsp70.1 contributes to cardioprotection after permanent coronary occlusion.

J Mol Cell Cardiol 2011 Jul 23;51(1):82-9. Epub 2011 Mar 23.

Department of Pharmacology & Cell Biophysics, University of Cincinnati College of Medicine, Cincinnati, OH 45267-0575, USA.

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http://dx.doi.org/10.1016/j.yjmcc.2011.03.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3569977PMC
July 2011

Haplotype association mapping of acute lung injury in mice implicates activin a receptor, type 1.

Am J Respir Crit Care Med 2011 Jun 4;183(11):1499-509. Epub 2011 Feb 4.

Department of Environmental and Occupational Health, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, PA 15219-3130, USA.

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http://dx.doi.org/10.1164/rccm.201006-0912OCDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3137140PMC
June 2011

Generalized random set framework for functional enrichment analysis using primary genomics datasets.

Bioinformatics 2011 Jan 22;27(1):70-7. Epub 2010 Oct 22.

Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/btq593DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3025713PMC
January 2011

WebGimm: An integrated web-based platform for cluster analysis, functional analysis, and interactive visualization of results.

Source Code Biol Med 2011 Jan 17;6. Epub 2011 Jan 17.

Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health, University of Cincinnati College of Medicine, 3223 Eden Av, ML 56, Cincinnati OH 45267-0056, USA.

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http://dx.doi.org/10.1186/1751-0473-6-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3033799PMC
January 2011

Research resource: estrogen-driven prolactin-mediated gene-expression networks in hormone-induced prostatic intraepithelial neoplasia.

Mol Endocrinol 2010 Nov 22;24(11):2207-17. Epub 2010 Sep 22.

Department of Environmental Health, University of Cincinnati Medical Center, Kettering Laboratory, Suite 128, 3223 Eden Avenue, Cincinnati, Ohio 45267-0056, USA.

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http://dx.doi.org/10.1210/me.2010-0179DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2958750PMC
November 2010

NF-kappaB driven cardioprotective gene programs; Hsp70.3 and cardioprotection after late ischemic preconditioning.

J Mol Cell Cardiol 2010 Oct 16;49(4):664-72. Epub 2010 Jul 16.

Department of Pharmacology & Cell Biophysics, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USA.

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http://dx.doi.org/10.1016/j.yjmcc.2010.07.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3570030PMC
October 2010

MicroRNA-494 targeting both proapoptotic and antiapoptotic proteins protects against ischemia/reperfusion-induced cardiac injury.

Circulation 2010 Sep 13;122(13):1308-18. Epub 2010 Sep 13.

Department of Pharmacology and Cell Biophysics, University of Cincinnati College of Medicine, 231 Albert Sabin Way, Cincinnati, OH 45267-0575, USA.

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http://dx.doi.org/10.1161/CIRCULATIONAHA.110.964684DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2956502PMC
September 2010

Functional genomics of chlorine-induced acute lung injury in mice.

Proc Am Thorac Soc 2010 Jul;7(4):294-6

Department of Environmental and Occupational Health, Graduate School of Public Health, University of Pittsburgh, 100 Technology Drive, Pittsburgh, PA 15219-3130, USA.

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http://dx.doi.org/10.1513/pats.201001-005SMDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3136967PMC
July 2010

A semi-parametric Bayesian model for unsupervised differential co-expression analysis.

BMC Bioinformatics 2010 May 7;11:234. Epub 2010 May 7.

Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati OH 45267-0056, USA.

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http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
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http://dx.doi.org/10.1186/1471-2105-11-234DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2876132PMC
May 2010

Genomics Portals: integrative web-platform for mining genomics data.

BMC Genomics 2010 Jan 13;11:27. Epub 2010 Jan 13.

Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati OH 45267-0056, USA.

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http://dx.doi.org/10.1186/1471-2164-11-27DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2824719PMC
January 2010

The role of T cells in the regulation of acrolein-induced pulmonary inflammation and epithelial-cell pathology.

Res Rep Health Eff Inst 2009 Dec(146):5-29

Department of Environmental Health, Division of Environmental Genetics and Molecular Toxicology, University of Cincinnati College of Medicine, Cincinnati, OH 45267-0056, USA.

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December 2009

CLEAN: CLustering Enrichment ANalysis.

BMC Bioinformatics 2009 Jul 29;10:234. Epub 2009 Jul 29.

Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health, University of Cincinnati College of Medicine, 3223 Eden Av, ML 56, Cincinnati OH 45267-0056, USA.

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http://dx.doi.org/10.1186/1471-2105-10-234DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2734555PMC
July 2009

Genomewide analysis of aryl hydrocarbon receptor binding targets reveals an extensive array of gene clusters that control morphogenetic and developmental programs.

Environ Health Perspect 2009 Jul 24;117(7):1139-46. Epub 2009 Mar 24.

Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health and Center for Environmental Genetics, University of Cincinnati College of Medicine, Cincinnati, Ohio 45220, USA.

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http://dx.doi.org/10.1289/ehp.0800485DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2717142PMC
July 2009

Gene expression profiling of blood to predict the onset of leukemia.

Blood Cells Mol Dis 2009 Jan-Feb;42(1):64-70. Epub 2008 Oct 19.

University of Cincinnati, Department of Environmental Health, Cincinnati, OH, 45267-0056, USA.

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http://dx.doi.org/10.1016/j.bcmd.2008.09.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2633775PMC
February 2009

LRpath: a logistic regression approach for identifying enriched biological groups in gene expression data.

Bioinformatics 2009 Jan 27;25(2):211-7. Epub 2008 Nov 27.

Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, USA.

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http://dx.doi.org/10.1093/bioinformatics/btn592DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2639007PMC
January 2009

Deletion hotspots in AMACR promoter CpG island are cis-regulatory elements controlling the gene expression in the colon.

PLoS Genet 2009 Jan 16;5(1):e1000334. Epub 2009 Jan 16.

Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH, USA.

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http://dx.doi.org/10.1371/journal.pgen.1000334DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2613032PMC
January 2009

Persistent hypomethylation in the promoter of nucleosomal binding protein 1 (Nsbp1) correlates with overexpression of Nsbp1 in mouse uteri neonatally exposed to diethylstilbestrol or genistein.

Endocrinology 2008 Dec 31;149(12):5922-31. Epub 2008 Jul 31.

Department of Environmental Health, Kettering Complex, Room 128, 3223 Eden Avenue, University of Cincinnati Medical Center, P.O. Box 670056, Cincinnati, Ohio 45267-0056, USA.

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https://academic.oup.com/endo/article-lookup/doi/10.1210/en.
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http://dx.doi.org/10.1210/en.2008-0682DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2613067PMC
December 2008

Nonredundant functions of alphabeta and gammadelta T cells in acrolein-induced pulmonary pathology.

Toxicol Sci 2008 Sep 29;105(1):188-99. Epub 2008 May 29.

Division of Environmental Genetics and Molecular Toxicology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267-0056, USA.

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http://dx.doi.org/10.1093/toxsci/kfn106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2734302PMC
September 2008

Transcriptome analyses in normal prostate epithelial cells exposed to low-dose cadmium: oncogenic and immunomodulations involving the action of tumor necrosis factor.

Environ Health Perspect 2008 Jun;116(6):769-76

Division of Environmental Genetics and Molecular Toxicology, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, Ohio 45267-0056, USA.

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http://dx.doi.org/10.1289/ehp.11215DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2430233PMC
June 2008

Gene expression profiling identifies lobe-specific and common disruptions of multiple gene networks in testosterone-supported, 17beta-estradiol- or diethylstilbestrol-induced prostate dysplasia in Noble rats.

Neoplasia 2008 Jan;10(1):20-40

Division of Environmental Genetics and Molecular Toxicology, Department of Environmental Health, University of Cincinnati Medical Center, Cincinnati, OH 45267 USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2216049PMC
http://dx.doi.org/10.1593/neo.07889DOI Listing
January 2008

Regeneration of the adult thymus is preceded by the expansion of K5+K8+ epithelial cell progenitors and by increased expression of Trp63, cMyc and Tcf3 transcription factors in the thymic stroma.

Int Immunol 2007 Nov 6;19(11):1249-60. Epub 2007 Sep 6.

Division of Viral Products, Center for Biologics Evaluation and Research, Food and Drug Administration, 8800 Rockville Pike, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1093/intimm/dxm092DOI Listing
November 2007

Genomic profile of matrix and vasculature remodeling in TGF-alpha induced pulmonary fibrosis.

Am J Respir Cell Mol Biol 2007 Sep 11;37(3):309-21. Epub 2007 May 11.

Division of Pulmonary Medicine, Cincinnati Children's Hospital Medical Center, University of Cincinnati School of Medicine, Cincinnati, Ohio 45229, USA.

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http://dx.doi.org/10.1165/rcmb.2006-0455OCDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1994231PMC
September 2007

Bayesian hierarchical model for transcriptional module discovery by jointly modeling gene expression and ChIP-chip data.

BMC Bioinformatics 2007 Aug 3;8:283. Epub 2007 Aug 3.

Department of Environmental Health, University of Cincinnati, 3223 Eden Ave, ML 56, Cincinnati, Ohio 45267, USA.

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http://dx.doi.org/10.1186/1471-2105-8-283DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1994961PMC
August 2007

Genome-wide analyses show that nuclear and cytoplasmic RNA levels are differentially affected by dioxin.

Biochim Biophys Acta 2006 Aug-Sep;1759(8-9):388-402. Epub 2006 Aug 7.

Division of Environmental Genetics and Molecular Toxicology, University of Cincinnati, Department of Environmental Health, Cincinnati, OH 45267-0056, USA.

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http://dx.doi.org/10.1016/j.bbaexp.2006.07.005DOI Listing
November 2006