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Publications

 

Masaki et al. in Best of Cell 2013

CM156, a sigma receptor ligand, reverses cocaine-induced place conditioning and transcriptional responses in the brain. 2011

Xu YT, Robson MJ, Szeszel-Fedorowicz W, Patel D, Rooney R, McCurdy CR, Matsumoto RR. Pharmacol Biochem Behav. 2011 Dec 30. [Epub ahead of print]

Panhistone deacetylase inhibitors inhibit proinflammatory signaling pathways to ameliorate interleukin-18-induced cardiac hypertrophy. 2011

Majumdar G, Rooney RJ, Johnson IM, Raghow R. Physiol Genomics 2011 Dec 16;43(24):1319-33.

The viral theory of schizophrenia revisited: Abnormal placental gene expression and structural changes with lack of evidence for H1N1 viral presence in placentae of infected mice or brains of exposed offspring. 2011

Fatemi SH, Folsom TD, Rooney RJ, Mori S, Kornfield TE, Reutiman TJ, Kneeland RE, Liesch SB, Hua K, Hsu J, Patel DH. Neuropharmacology. 2011 Mar;62(3):1290-8.

Levels of phosphodiesterase 4A and 4B are altered by chronic treatment with psychotropic medications in rat frontal cortex. 2010

Fatemi SH, Folsom TD, Reutiman TJ, Braun NN, Lavergne LG. Synapse. 2010 Jul;64(7):550-5.

Distinct gene signature revealed in white blood cells, CD4þ and CD8þ T cells in (NZBx NZW) F1 lupus mice after tolerization with anti-DNA Ig peptide. 2010

Singh RP, Dinesh R, Elashoff D, de Vos S, Rooney RJ, Patel D, La Cava A and Hahn BH. Genes and Immunity 2010 Jun;11(4):294-309.

mRNA and protein levels for GABAAalpha4, alpha5, beta1 and GABABR1 receptors are altered in brains from subjects with autism. 2010

Fatemi SH, Reutiman TJ, Folsom TD, Rooney RJ, Patel DH, Thuras PD.J Autism Dev Disord. 2010 Jun;40(6):743-50.

Phosphodiesterase signaling system is disrupted in the cerebella of subjects with schizophrenia, bipolar disorder, and major depression. 2010

Fatemi SH, Folsom TD, Reutiman TJ, Vazquez G. Schizophr Res. 2010 Jun;119(1-3):266-7.

Early detection of squamous cell lung cancer in sputum by a panel of microRNA markers. 2010

Xing L, Todd NW, Yu L, Fang H, Jiang F. Mod Pathol. 2010 Jun 4. [Epub ahead of print]

Targeted deletion of Dicer from proximal tubules protects against renal ischemia-reperfusion injury. 2010

Wei Q, Bhatt K, He HZ, Mi QS, Haase VH, Dong Z. J Am Soc Nephrol. 2010 May;21(5):756-61.

Antimicrobial peptide MUC7 12-mer activates the calcium/calcineurin pathway in Candida albicans. 2010

Lis M, Liu TT, Barker KS, Rogers PD, Bobek LA. FEMS Yeast Res. 2010 Apr 29. [Epub ahead of print].

Early detection of lung adenocarcinoma in sputum by a panel of microRNA markers. 2010

Yu L, Todd NW, Xing L, Xie Y, Zhang H, Liu Z, Fang H, Zhang J, Katz RL, JiangF. Int J Cancer. 2010 Mar 2. [Epub ahead of print]

Altered miRNA expression in sputum for diagnosis of non-small cell lung cancer. 2010

Xie Y, Todd NW, Liu Z, Zhan M, Fang H, Peng H, Alattar M, Deepak J, Stass SA, Jiang F. Lung Cancer. 2010 Feb;67(2):170-6.

New insights into BMP-7 mediated osteoblastic differentiation of primary human mesenchymal stem cells. 2009

Lavery K, Hawley S, Swain P, Rooney R, Falb D, and Alaoui-Ismaili MH. Bone. 2009; 45(1): 27-41.

Antiviral activity and host gene induction by tamarin and marmoset interferon-alpha and interferon-gamma in the GBV-B primary hepatocyte culture model. 2009

Chavez D, Guerra B, Lanford RE. Virology. 2009 Aug 1;390(2):186-96.

Hepatic Gene Expression in Mobidly Obese Women: Implications for Disease Susceptability. 2009

Elam MB, Cowan GS Jr, Rooney RJ, Hiler ML, Yellaturu CR, Deng X, Howell GE, Park EA, Gerling IC, Patel D, Corton JC, Cagen LM, Wilcox HG, Gandhi M, Bahr MH, Allan MC, Wodi LA, Cook GA, Hughes TA and Raghow R. Obesity 2009 Aug 1;17: 1563–1573.

Comparative effects of estradiol, methyl-piperidino-pyrazole, raloxifene, and ICI 182 780 on gene expression in the murine uterus. 2008

Davis AM, Mao J, Naz B, Kohl JA, Rosenfeld CS. J Mol Endocrinol. 2008 Oct;41(4):205-17.

Transcriptome profile of the vascular endothelial cell response to Candida albicans. 2008

Barker KS, Park H, Phan QT, Xu L, Homayouni R, Rogers PD, Filler SG.J Infect Dis. 2008 Jul 15;198(2):193-202.

A gain-of-function mutation in the transcription factor Upc2p causes upregulation of ergosterol biosynthesis genes and increased fluconazole resistance in a clinical Candida albicans isolate. 2008

Dunkel N, Liu TT, Barker KS, Homayouni R, Morschhäuser J, Rogers PD. Eukaryot Cell. 2008 Jul;7(7):1180-90.

Opposing roles of netrin-1 and the dependence receptor DCC in cancer cell invasion, tumor growth, and metastasis. 2007

McBride SM, Fischetti VA, Leblanc DJ, Moellering RC Jr, Gilmore MS. Geneticdiversity among Enterococcus faecalis. PLoS One. 2007 Jul 4;2(7):e582.Rodrigues S, De Wever O, Bruyneel E, Rooney RJ, Mehlen P and Gespach C. Oncogene 2007; 26(38): 5615-5625.

Genome-wide expression and location analyses of the Candida albicans Tac1p regulon. 2007

Liu TT, Znaidi S, Barker KS, Xu L, Homayouni R, Saidane S, Morschhäuser J,Nantel A, Raymond M, Rogers PD.

Eukaryot Cell. 2007 Nov;6(11):2122-38.

Lack of response to exogenous interferon-alpha in the liver of chimpanzees chronically infected with hepatitis C virus. 2007Lanford RE, Guerra B, Bigger CB, Lee H, Chavez D, Brasky KM.

Hepatology. 2007 Oct;46(4):999-1008.Genetic Diversity among Enterococcus faecalis 2007

Shonna M. McBride1, Vincent A. Fischetti2, Donald J. LeBlanc3¤, Robert C. Moellering, Jr.4, Michael S. Gilmore1*

1Schepens Eye Research Institute, Harvard Medical School, Boston, Massachusetts, United States of America, 2The Laboratory of Bacterial Pathogenesis and Immunology, The Rockefeller University, New York, New York, United States of America, 3Antibacterial Molecular Sciences, Global Research and Development, Pfizer, Inc., Ann Arbor, Michigan, United States of America, 4Department of Medicine, Beth Israel Deaconess Medical Center, and Harvard Medical School, Boston, Massachusetts, United States of America

Differential Cerebral Cortex Transcriptomes of Baboon Neonates Consuming Moderate and High Docosahexaenoic Acid Formulas: 2007

Kumar S. D. Kothapalli1, Joshua C. Anthony2, Bruce S. Pan1, Andrea T. Hsieh1, Peter W. Nathanielsz3, J. Thomas Brenna1*

1Division of Nutritional Sciences, Cornell University, Savage Hall, Ithaca, New York, United States of America, 2Mead Johnson and Company, Evansville, Indiana, United States of America, 3Center for Pregnancy and Newborn Research, University of Texas Health Science Center, San Antonio, Texas, United States of America

Gene expression profiling of microglia infected by a highly neurovirulent murine leukemia virus: implications for neuropathogenesis: 2007

Derek E Dimcheff1, 4, L Gwenn Volkert2, Ying Li3, Angelo L DeLucia3 and William P Lynch 3

1Laboratory of Persistent Viral Diseases, Rocky Mountain Laboratories, NIAID, NIH, Hamilton, MT, 2Department of Computer Science, Kent State University, Kent, Ohio,3Department of Microbiology, Immunology, and Biochemistry, Northeastern Ohio Universities College of Medicine, Rootstown, Ohio, 4University of Michigan Medical School, Ann Arbor, MI,

Gene expression profile differences in left and right liver lobes from mid-gestation fetal baboons: a cautionary tale: 2006

Laura A. Cox1,2, Natalia Schlabritz-Loutsevitch3, Gene B. Hubbard2, Mark J. Nijland3, Thomas J. McDonald3 and Peter W. Nathanielsz3

1Department of Genetics, Southwest Foundation for Biomedical Research, San Antonio, TX, USA, 2Southwest National Primate Research Center, Southwest Foundation for Biomedical Research, San Antonio, TX, USA, 3Department of Obstetrics and Gynecology and Center for Pregnancy and Newborn Research, University of Texas Health Science Center, San Antonio, TX, USA

Effect of 30 percent maternal nutrient restriction from 0.16 to 0.5 gestation on fetal baboon kidney gene expression: 2006

L. A. Cox1,2,5, M. J. Nijland6, J. S. Gilbert6, N. E. Schlabritz-Loutsevitch5,6, G. B. Hubbard4,5,, T. J. McDonald5,6, R. E. Shade3,5 and P.W. Nathanielsz5,6

1Department of Genetics, Southwest Foundation for Biomedical Research, 7620 NW Loop 410, San Antonio, TX 78227-5301, USA 2Department of Genetics,3Department of Physiology & Medicine, 4Department of Comparative Medicine and5Southwest National Primate Research Center, Southwest Foundation for Biomedical Research, San Antonio, TX 78227, USA 6Center for Pregnancy and Newborn Research, Department of Obstetrics and Gynecology, University of Texas Health Science Center, San Antonio, TX 78229, USA

NFκB NEGATIVELY REGULATES INTERFERON-INDUCED GENE EXPRESSION AND ANTI-INFLUENZA ACTIVITY: 2006

Lai Wei1,2, Matthew R. Sandbulte3, Paul G. Thomas4, Richard J. Webby3, Ramin Homayouni2, and Lawrence M. Pfeffer1,‡

1Departments of Pathology and Laboratory Medicine, University of Tennessee Health Science Center And the University of Tennessee Cancer Institute, Memphis, TN 38163, 2Department of Neurology, University of Tennessee Health Science Center And the University of Tennessee Cancer Institute, Memphis, TN 38163 3Department of Infectious Diseases, St. Jude Children’s Research Hospital, Memphis, TN 38105 4Department of Immunology, St. Jude Children’s Research Hospital, Memphis, TN 38105

Differential gene expression, GATA1 target genes, and the chemotherapy sensitivity of Down syndrome megakaryocytic leukemia: 2006

Yubin Ge, Alan A. Dombkowski, Katherine M. LaFiura, Dana Tatman, Ravikiran S. Yedidi, Mark L. Stout, Steven A. Buck, Gita Massey, David L. Becton, Howard J. Weinstein, Yaddanapudi Ravindranath, Larry H. Matherly, and Jeffrey W. Taub

From the Experimental and Clinical Therapeutics Program, Barbara AnnKarmanos Cancer Institute, Institute of Environmental Health Sciences,Wayne State University, Detroit, MI; Division of Pediatric Hematology/Oncology, Children’s Hospital of Michigan, Detroit, MI; Department of Pediatrics and Pharmacology, Wayne State University School of Medicine, Detroit, MI; Medical College of Virginia,Richmond, VA; University of Arkansas, Little Rock, AR; and Massachusetts General Hospital, Boston, MA.

Murine central and peripheral nervous system transcriptomes: Comparative gene expression: 2006

Mark S. LeDoux, Lijing Xu, Jianfeng Xiao, Brett Ferrell, Daniel L. Menkes, Ramin Homayouni

University of Tennessee Health Science Center, Departments of Neurology and Anatomy and Neurobiology and Center of Genomics and Bioinformatics, 855 Monroe Avenue, Link Building-Suite 415, Memphis, TN 38163, USA

Cultured lymphocytes from autistic children and non-autistic siblings up-regulate heat shock protein RNA in response to thimerosal challenge: 2006

Stephen J. Walker a, Jeffrey Segal, Michael Aschner b

aDepartment of Physiology and Pharmacology, Wake Forest University School of Medicine, Winston-Salem, NC 27156, United States bDepartments of Pediatrics, Pharmacology, and the Kennedy Center, Vanderbilt University Medical Center,1162 21st Avenue South, B-3307, Medical Center North, Nashville, TN 37232-2495, United States

The ErbB3-binding protein Ebp1 suppresses androgen receptor-mediated gene transcription and tumorigenesis of prostate cancer cells: 2005

Yuexing Zhang, Xin-Wei Wang, Danijela Jelovac, Takeo Nakanishi, Myoung-hee Yu, Damilola Akinmade,Olga Goloubeva, Douglas D. Ross_, Angela Brodie, and Anne W. Hamburger

Greenebaum Cancer Center and Departments of Pathology and Pharmacology, University of Maryland School of Medicine, Baltimore, MD 21201; Laboratory of Human Carcinogenesis, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892; and Baltimore Veterans Affairs Medical Center, Baltimore, MD 21201

Detoxification and Transcriptome Response in Arabidopsis Seedlings Exposed to the Allelochemical Benzoxazolin-2(3H)-one: 2005

Scott R. Baerson, Adela Sa´nchez-Moreiras_, Nuria Pedrol-Bonjoch, Margot Schulz, Isabelle A. Kagan, Ameeta K. Agarwal, Manuel J. Reigosa, and Stephen O. Duke

From the United States Department of Agriculture, Agricultural Research Service, Natural Products Utilization, Research Unit, University, Mississippi 38677, Laboratorio de Ecofisioloxia Vexetal, Facultade de Ciencias, Universidade de Vigo, Vigo 36310, Spain, A´ rea de Nutricio´n, Pastos y Forrajes, SERIDA, Estacio´n Experimental, “La Mata,” Grado 33820, Spain, Institut fu¨r Molekulare Physiologie und Biotechnologie der Pflanzen, Universita¨ Bonn, Biozentrum Karlrobert Kreiten Strasse 13, 53115 Bonn, Germany, and National Center for Natural Products Research, University of Mississippi, University, Mississippi 38677

Identification of global gene expression differences between human lens epithelial and cortical fiber cells reveals specific genes and their associated pathways important for specialized lens cell functions: 2005

John R. Hawse,1,2 Candida DeAmicis-Tress,1 Tracy L. Cowell,1 Marc Kantorow1

1Department of Biomedical Science, Florida Atlantic University, Boca Raton, FL;2Department of Biochemistry and Molecular Biology, Mayo Clinic College of Medicine, Rochester, MN

Transcriptional Profiling of Target of RNAIII-Activating Protein, a Master Regulator of Staphylococcal Virulence: 2005

Rajesh K Sharma, William E Orr, Allyson D Schmitt and Dianna A Johnson

Department of Ophthalmology and Hamilton Eye Institute, University of Tennessee Health Science Center, 930 Madison Ave, Memphis,TN 38163, USAl: Rajesh K Sharma ; William E Orr ; Allyson D Schmitt ; Dianna A Johnson

Temporal Changes in Gene Expression after Injury in the Rat Retina: 2004

Felix Vazquez-Chona, Bong K. Song, and Eldon E. Geisert, Jr

From the Department of Ophthalmology, University of Tennessee Health Science Center, Memphis, Tennessee. Corresponding author: Eldon E. Geisert, Jr, Department of Ophthalmology,University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, TN 38163

Probing the ArcA-P Modulon of Escherichia coli by Whole Genome Transcriptional Analysis and Sequence Recognition Profiling: 2004

Xueqiao Liu and Peter De Wulf

From the Department of Microbiology and Molecular Genetics, Harvard Medical School, Boston, Massachusetts 02115

Molecular genetic responses to lysergic acid diethylamide include transcriptional activation of MAP kinase phosphatase-1, C/EBP-b and ILAD-1, a novel gene with homology to arrestins: 2004

Charles D. Nichols and Elaine Sanders-Bush

Department of Pharmacology, Vanderbilt University School of Medicine, Nashville, Tennessee, USA

Dietary Olive Oil and Menhaden Oil Mitigate Induction of Lipogenesis in Hyperinsulinemic Corpulent JCR:LA-cp Rats: Microarray Analysis of Lipid-Related Gene Expression: 2004

Xiong Deng Ph.D1,2, Marshall B Elam Ph.D M.D. 1,2,4 ,Henry G. Wilcox Ph.D.2,Lauren M. Cagen Ph.D.2, Edwards Park Ph.D.2, Rajendra Raghow Ph.D.,1,2, Divyen Patel Ph.D.3, Poonam Kumar B.S. 2, Ali Sheybani M.D. 4,James C. Russell Ph.D.5

1Department of Veterans Affairs Medical Center, Memphis Tn. 2Department of Pharmacology, University of Tennessee Health Sciences Center, Memphis , Tn.3Genome Explorations Inc, Memphis Tn.4Department of Medicine, University of Tennessee Health Sciences Center, Memphis, Tn 5Department of Agriculture, Food and Nutritional Sciences, University of Alberta, Edmonton, Canada.

Role of Nuclear Factor-_B in the Antiviral Action of Interferon and Interferon-regulated Gene Expression: 2003

Lawrence M. Pfeffer, Jong-Gwan Kim, Susan R. Pfeffer, Dennis J. Carrigan, Darren P. Baker, Lai Wei_, and Ramin Homayouni

From the Departments of Pathology and Laboratory Medicine and Neurology, University of Tennessee Health Science Center, Memphis, Tennessee 38103 and Biogen Idec, Incorporated, Cambridge, Massachusetts 02142

Genome-wide Expression Profiling of the Response to Polyene, Pyrimidine, Azole, and Echinocandin Antifungal Agents inSaccharomyces cerevisiae: 2003

Ameeta K. Agarwal, P. David Rogers, Scott R. Baerson, Melissa R. Jacob, Katherine S. Barker, John D. Cleary, Larry A. Walker, Dale G. Nagle, and Alice M. Clark

From the National Center for Natural Products Research, Department of Pharmacognosy, the Department of Pharmacology, and Research Institute of Pharmaceutical Sciences, University of Mississippi School of Pharmacy, University, Mississippi 38677, the Departments of Pharmacy, Pharmaceutical Sciences and Pediatrics, Colleges of Pharmacy and Medicine, University of Tennessee Health Science Center, Memphis, Tennessee 38163, the _United States Department of Agriculture, Agricultural Research Service, Natural Products Utilization Research Unit, University, Mississippi 38677, and the Departments of Clinical Pharmacy Practice and Medicine, Schools of Pharmacy and Medicine, University of Mississippi Medical Center, Jackson, Mississippi 39216

Identification and functional clustering of global gene expression differences between human age-related cataract and clear lenses: 2003

John R. Hawse,1,2 James F. Hejtmancik,3 Quingling Huang,4 Nancy L. Sheets,2Douglas A. Hosack,5 Richard A.Lempicki,5 Joseph Horwitz,4 Marc Kantorow1

1Biomedical Sciences, Florida Atlantic University, Boca Raton, FL; 2Department of Biology, West Virginia University, Morgantown, WV; 3OGVFB/NIH, Bethesda, MD;4UCLA School of Medicine, Jules Stein Eye Institute, Los Angeles, CA; 5Laboratory of Immunopathogenesis and Bioinformatics, SAIC Frederick Inc., Frederick, MD

Identification of genes differentially expressed in association with reduced azole susceptibility in Saccharomyces cerevisiae: 2003

Katherine S. Barker1, Margaret M. Pearson2 and P. David Rogers1,3,4

Departments of 1Pharmacy and 3Pharmaceutical Sciences, College of Pharmacy;4Department of Pediatrics, College of Medicine, University of Tennessee Health Science Center, Memphis, TN 38163; 2Department of Pharmacy Practice, School of Pharmacy,University of Mississippi, Jackson, MS 39216, USA

Aldosteronism: an immunostimulatory state precedes proinflammatory/fibrogenic cardiac phenotype: 2003

Ivan C. Gerling,1 Yao Sun,2 Robert A. Ahokas,3 Linus A. Wodi,2 Syamal K. Bhattacharya,4 Kenneth J. Warrington,5 Arnold E. Postlethwaite,5 and Karl T. Weber2

Divisions of 1Endocrinology, 2Cardiovascular Diseases, and 5Connective Tissue Diseases, Department of Medicine; and Departments of 3Obstetrics and Gynecology and 4Surgery, University of Tennessee Health Science Center, Memphis, Tennessee 38163

Genetic sources of individual differences in the cerebellum: 2002

David C Airey, Lu Lu, Siming Shou, Robert W Williams

Department of Anatomy and Neurobiology, University of Tennessee, Memphis, TN, USA

Comparing the use of Affymetrix to spotted oligonucleotide microarrays using two retinal pigment epithelium cell lines

Anna T. Rogojina, William E. Orr, Bong K. Song, Eldon E. Geisert, Jr.

Department of Ophthalmology, Health Science Center, University of Tennessee, Memphis, TNMarch 2005

Genome Explorations Turns Tiny Genes Into Big Business

Dr. Divyen Patel has dedicated most of his adult life to diagnosing and battling diseases. From his days as a graduate student at the University of Leeds in England, to his time with St. Jude Children’s Research Hospital developing differential gene expression research methods…

March 2005

Complex trait analysis of gene expression uncovers polygenic and pleiotropic networks that modulate nervous system function.

Patterns of gene expression in the central nervous system are highly variable and heritable. This genetic variation among normal individuals leads to considerable structural, functional and behavioral differences…

August 2004

Temporal Changes in Gene Expression After Injury in the Rat Retina

The goal of this study was to define the temporal changes in gene expression after retinal injury and to relate these changes to the inflammatory and reactive response…

October 2003

Comparing the use of Affymetrix to spotted oligonucleotide microarrays using two retinal pigment epithelium cell lines

The emerging technology of DNA microarrays is revolutionizing our approach to science by combining the power of genomics with the experimental questions asked by basic and clinical scientists…

May 2003

Identification and functional clustering of global gene expression differences between human age-related cataract and clear lenses

The role of the eye lens is to focus incoming light onto the retina where visual information is then processed and transmitted to the brain. The lens is an excellent model for the study of age related diseases since it has no blood supply…

Complex Trait Analysis of Transcriptional Networks

Understanding the control and modulation of transcriptional networks in the CNS is now regarded as one of the most critical problems in basic and clinical neuroscience…

May 2003

Use of Microarray Technology for Determining Gene Expression Signatures for Different Disease States

It is widely accepted that genes and their products function in a complicated and orchestrated way to create the diversity of life within a given living organism…

March 2003

Towards A Genetic Signature of Lymph Node Positive Breast Cancer

March 2002

Classification, subtype discovery, and prediction of outcome in pediatric acute lymphoblastic leukemia by gene expression profiling Cancer Cell

February 2002

Shaping Gene Expression in Activated and Resting Primary Macrophages by IL-10

Journal of Immunology