Physiol. Genomics -- Table of Contents (September 21 2005, 23 [1])

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Editorial:

Daniel A. Beard, James B. Bassingthwaighte, and Andrew S. Greene: Computational modeling of physiological systems
Physiol. Genomics 23: 1-3, 2005; doi:10.1152/physiolgenomics.00117.2005 [Full Text] [PDF]

Editorial Focus:

Allen W. Cowley, Jr.: Focus on "Computational modeling of physiological systems"
Physiol. Genomics 23: 4, 2005; doi:10.1152/physiolgenomics.00143.2005 [Full Text] [PDF]

CALL FOR PAPERS: Comparative Genomics:

Amar A. Patil, Yibin Cai, Yongming Sang, Frank Blecha, and Guolong Zhang: Cross-species analysis of the mammalian ß-defensin gene family: presence of syntenic gene clusters and preferential expression in the male reproductive tract
Physiol. Genomics 23: 5-17, 2005. First published July 20, 2005; doi:10.1152/physiolgenomics.00104.2005 [Abstract] [Full Text] [PDF] [Supplemental Tables and Figures]

Translational Physiology:

Beverly A. Rothermel, Kambeez Berenji, Paul Tannous, William Kutschke, Asim Dey, Bridgid Nolan, Ki-Dong Yoo, Elaine Demetroulis, Michael Gimbel, Barry Cabuay, Mohsen Karimi, and Joseph A. Hill: Differential activation of stress-response signaling in load-induced cardiac hypertrophy and failure
Physiol. Genomics 23: 18-27, 2005. First published July 20, 2005; doi:10.1152/physiolgenomics.00061.2005 [Abstract] [Full Text] [PDF]

Research Articles:

Rafal Pawliczak, Carolea Logun, Patricia Madara, Jennifer Barb, Anthony F. Suffredini, Peter J. Munson, Robert L. Danner, and James H. Shelhamer: Influence of IFN- ${gamma}$ on gene expression in normal human bronchial epithelial cells: modulation of IFN- ${gamma}$ effects by dexamethasone
Physiol. Genomics 23: 28-45, 2005. First published June 28, 2005; doi:10.1152/physiolgenomics.00011.2005 [Abstract] [Full Text] [PDF] [Supplemental Tables]

Timm H. Westhoff, Stefanie Scheid, Markus Tölle, Bogac Kaynak, Sven Schmidt, Walter Zidek, Silke Sperling, and Markus van der Giet: A physiogenomic approach to study the regulation of blood pressure
Physiol. Genomics 23: 46-53, 2005. First published June 7, 2005; doi:10.1152/physiolgenomics.00077.2005 [Abstract] [Full Text] [PDF]

Anne-Marie Lemay and Christina K. Haston: Bleomycin-induced pulmonary fibrosis susceptibility genes in AcB/BcA recombinant congenic mice
Physiol. Genomics 23: 54-61, 2005; doi:10.1152/physiolgenomics.00095.2005 [Abstract] [Full Text] [PDF] [Supplemental Table]

Soon Jin Lee, Justin A. Ways, John C. Barbato, David Essig, Krista Pettee, Sarah J. DeRaedt, Siming Yang, David A. Weaver, Lauren G. Koch, and George T. Cicila: Gene expression profiling of the left ventricles in a rat model of intrinsic aerobic running capacity
Physiol. Genomics 23: 62-71, 2005. First published July 20, 2005; doi:10.1152/physiolgenomics.00251.2004 [Abstract] [Full Text] [PDF] [Supplemental Material]

Xiaoli Zhao, Morikatsu Yoshida, Leticia Brotto, Hiroshi Takeshima, Noah Weisleder, Yutaka Hirata, Thomas M. Nosek, Jianjie Ma, and Marco Brotto: Enhanced resistance to fatigue and altered calcium handling properties of sarcalumenin knockout mice
Physiol. Genomics 23: 72-78, 2005. First published July 5, 2005; doi:10.1152/physiolgenomics.00020.2005 [Abstract] [Full Text] [PDF]

Alina Maloyan, Luba Eli-Berchoer, Gregg L. Semenza, Gary Gerstenblith, Michael D. Stern, and Michal Horowitz: HIF-1 ${alpha}$ -targeted pathways are activated by heat acclimation and contribute to acclimation-ischemic cross-tolerance in the heart
Physiol. Genomics 23: 79-88, 2005. First published July 26, 2005; doi:10.1152/physiolgenomics.00279.2004 [Abstract] [Full Text] [PDF]

Liqun Yu, Peter M. Haverty, Juliana Mariani, Yumei Wang, Hai-Ying Shen, Michael A. Schwarzschild, Zhiping Weng, and Jiang-Fan Chen: Genetic and pharmacological inactivation of adenosine A_2A receptor reveals an Egr-2-mediated transcriptional regulatory network in the mouse striatum
Physiol. Genomics 23: 89-102, 2005. First published July 26, 2005; doi:10.1152/physiolgenomics.00068.2005 [Abstract] [Full Text] [PDF] [Supplemental Material]

Jennifer Y. King, Rossella Ferrara, Raymond Tabibiazar, Joshua M. Spin, Mary M. Chen, Allan Kuchinsky, Aditya Vailaya, Robert Kincaid, Anya Tsalenko, David Xing-Fei Deng, Andrew Connolly, Peng Zhang, Eugene Yang, Clifton Watt, Zohar Yakhini, Amir Ben-Dor, Annette Adler, Laurakay Bruhn, Philip Tsao, Thomas Quertermous, and Euan A. Ashley: Pathway analysis of coronary atherosclerosis
Physiol. Genomics 23: 103-118, 2005. First published June 7, 2005; doi:10.1152/physiolgenomics.00101.2005 [Abstract] [Full Text] [PDF]

Cover Caption:

Cover Cover: Overview of physiological genomics in the rat and the various translational technologies available to relate rat research to human systems. Left: the traditional positional cloning process wherein 2 rats, 1 possessing the phenotype of interest and the other an unaffected control strain, are crossed. The progeny are genotyped and phenotyped, leading to the definition of quantitative trait loci linking the phenotype to specific regions of the genome. The regions are then examined for potential candidate genes, and comparative genomics is used to integrate evidence from other organisms or to translate results to the human genome. Translation of information to the human system is also becoming possible using informatic tools such as ontologies. Various ontologies are shown connecting elements of the experimental paradigm to related human data. For details, see Twigger SN, Pasko D, Nie J, Shimoyama M, Bromberg S, Campbell D, Chen J, dela Cruz N, Fan C, Foote C, Harris G, Hickmann B, Ji Y, Jin W, Li D, Mathis J, Nenasheva N, Nigam R, Petri V, Reilly D, Ruotti V, Schauberger E, Seiler K, Slyper R, Smith J, Wang W, Wu W, Zhao L, Zuniga-Meyer A, Tonellato PJ, Kwitek AE, and Jacob HJ. Tools and strategies for physiological genomics: the Rat Genome Database. Physiol. Genomics 23: 246-256, 2005 First published August 16, 2005; doi: 10.1152/physiolgenomics.00040.2005.