Physiol. Genomics -- Table of Contents (March 2008, 33 [1])

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Editorial:

Allen W. Cowley, Jr.: Harnessing "omic" tools and computational hypothesis-driven approaches to understand biocomplexity: the future of Physiological Genomics
Physiol. Genomics 33: 1-2, 2008. First published January 15, 2008; doi:10.1152/physiolgenomics.00005.2008 [Full Text] [PDF]

Reviews:

Shama P. Mirza and Michael Olivier: Methods and approaches for the comprehensive characterization and quantification of cellular proteomes using mass spectrometry
Physiol. Genomics 33: 3-11, 2008. First published December 27, 2007; doi:10.1152/physiolgenomics.00292.2007 [Abstract] [Full Text] [PDF]

Peter Matt, Zongming Fu, Qin Fu, and Jennifer E. Van Eyk: Biomarker discovery: proteome fractionation and separation in biological samples
Physiol. Genomics 33: 12-17, 2008. First published December 27, 2007; doi:10.1152/physiolgenomics.00282.2007 [Abstract] [Full Text] [PDF]

Eric W. Deutsch, Henry Lam, and Ruedi Aebersold: Data analysis and bioinformatics tools for tandem mass spectrometry in proteomics
Physiol. Genomics 33: 18-25, 2008. First published January 22, 2008; doi:10.1152/physiolgenomics.00298.2007 [Abstract] [Full Text] [PDF]

Call For Papers: Computational Modeling for Physiological Systems:

Renhua Li, Karen L. Svenson, Leah Rae B. Donahue, Luanne L. Peters, and Gary A. Churchill: Relationships of dietary fat, body composition, and bone mineral density in inbred mouse strain panels
Physiol. Genomics 33: 26-32, 2008. First published January 29, 2008; doi:10.1152/physiolgenomics.00174.2007 [Abstract] [Full Text] [PDF] [Supplemental Tables]

Research Articles:

Micheline M. de Resende, Sandra L. Amaral, Carol Moreno, and Andrew S. Greene: Congenic strains reveal the effect of the renin gene on skeletal muscle angiogenesis induced by electrical stimulation
Physiol. Genomics 33: 33-40, 2008. First published January 15, 2008; doi:10.1152/physiolgenomics.00150.2007 [Abstract] [Full Text] [PDF] [Supplemental Table]

Robert B. White and Melanie R. Ziman: Genome-wide discovery of Pax7 target genes during development
Physiol. Genomics 33: 41-49, 2008. First published January 15, 2008; doi:10.1152/physiolgenomics.00256.2007 [Abstract] [Full Text] [PDF] [Supplemental Figure and Tables]

Lawrence C. LaPointe, Robert Dunne, Glenn S. Brown, Daniel L. Worthley, Peter L. Molloy, David Wattchow, and Graeme P. Young: Map of differential transcript expression in the normal human large intestine
Physiol. Genomics 33: 50-64, 2008. First published December 4, 2007; doi:10.1152/physiolgenomics.00185.2006 [Abstract] [Full Text] [PDF] [Supplemental Figure]

Robin E. Everts, Pascale Chavatte-Palmer, Anthony Razzak, Isabelle Hue, Cheryl A. Green, Rosane Oliveira, Xavier Vignon, Sandra L. Rodriguez-Zas, X. Cindy Tian, Xiangzhong Yang, Jean-Paul Renard, and Harris A. Lewin: Aberrant gene expression patterns in placentomes are associated with phenotypically normal and abnormal cattle cloned by somatic cell nuclear transfer
Physiol. Genomics 33: 65-77, 2008. First published December 18, 2007; doi:10.1152/physiolgenomics.00223.2007 [Abstract] [Full Text] [PDF] [Supplemental Tables]

Wendy Rodenburg, A. Geert Heidema, Jolanda M. A. Boer, Ingeborg M. J. Bovee-Oudenhoven, Edith J. M. Feskens, Edwin C. M. Mariman, and Jaap Keijer: A framework to identify physiological responses in microarray-based gene expression studies: selection and interpretation of biologically relevant genes
Physiol. Genomics 33: 78-90, 2008. First published December 27, 2007; doi:10.1152/physiolgenomics.00167.2007 [Abstract] [Full Text] [PDF]

M. Mackiewicz, B. Paigen, N. Naidoo, and A. I. Pack: Analysis of the QTL for sleep homeostasis in mice: Homer1a is a likely candidate
Physiol. Genomics 33: 91-99, 2008. First published January 2, 2008; doi:10.1152/physiolgenomics.00189.2007 [Abstract] [Full Text] [PDF] [Supplemental Table]

Anja Bye, Mette Langaas, Morten A. Høydal, Ole Johan Kemi, Garrett Heinrich, Lauren G. Koch, Steven L. Britton, Sonia M. Najjar, Øyvind Ellingsen, and Ulrik Wisløff: Aerobic capacity-dependent differences in cardiac gene expression
Physiol. Genomics 33: 100-109, 2008. First published January 2, 2008; doi:10.1152/physiolgenomics.00269.2007 [Abstract] [Full Text] [PDF]

Valerio Del Vescovo, Viviana Casagrande, Michele M. Bianchi, Eugenia Piccinni, Laura Frontali, Cristina Militti, Vivienne Fardeau, Frédéric Devaux, Claudio Di Sanza, Carlo Presutti, and Rodolfo Negri: Role of Hog1 and Yaf9 in the transcriptional response of Saccharomyces cerevisiae to cesium chloride
Physiol. Genomics 33: 110-120, 2008. First published January 15, 2008; doi:10.1152/physiolgenomics.00251.2007 [Abstract] [Full Text] [PDF] [Supplemental Tables and Figures]

Hiroshi Kitamura, Masatoshi Ito, Tomoko Yuasa, Chisato Kikuguchi, Atsushi Hijikata, Michiyo Takayama, Yayoi Kimura, Ryo Yokoyama, Tomohiro Kaji, and Osamu Ohara: Genome-wide identification and characterization of transcripts translationally regulated by bacterial lipopolysaccharide in macrophage-like J774.1 cells
Physiol. Genomics 33: 121-132, 2008. First published January 29, 2008; doi:10.1152/physiolgenomics.00095.2007 [Abstract] [Full Text] [PDF] [Supplemental Tables and Figures]

Report:

Helen E. MacLean, W. S. Maria Chiu, Cathy Ma, Julie F. McManus, Rachel A. Davey, Rhoda Cameron, Amanda J. Notini, and Jeffrey D. Zajac: A floxed allele of the androgen receptor gene causes hyperandrogenization in male mice
Physiol. Genomics 33: 133-137, 2008. First published January 2, 2008; doi:10.1152/physiolgenomics.00260.2007 [Abstract] [Full Text] [PDF]

Cover Caption:

Cover

Cover: In vivo bioluminescence imaging in combination with virally mediated delivery of luciferase reporters enables longitudinal mapping of transcription factor activity in discrete brain nuclei. After viral targeting of luciferase reporters of transcription factor activation to central cardiovascular regulatory nuclei (top, mouse brain section image courtesy of The Mouse Brain Library), bioluminescence measurements may be taken concurrently with physiological assessments, such as arterial pressure (bottom), in the same animal over time. This approach has the potential to reveal novel links between changes in transcription factor activation patterns in the central nervous system and functional physiologic outcomes. For details, see Peterson JR, Infanger DW, Braga VA, Zhang Y, Sharma RV, Engelhardt JF, and Davisson RL. Longitudinal noninvasive monitoring of transcription factor activation in cardiovascular regulatory nuclei using bioluminescence imaging. Physiol Genomics first published January 29, 2008; doi:10.1152/physiolgenomics.00296.2007.