Physiol. Genomics -- Table of Contents (December 2006, 28 [1])

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Call For Papers: 2nd International Symposium on Animal Functional Genomics:

Jeanne L. Burton and Guilherme J. M. Rosa: Physiological genomics special issue on animal functional genomics
Physiol. Genomics 28: 1-4, 2006; doi:10.1152/physiolgenomics.00220.2006 [Full Text] [PDF]

Cheryl M. T. Dvorak, Geoffrey N. Hirsch, Kendra A. Hyland, Julie A. Hendrickson, Beth S. Thompson, Mark S. Rutherford, and Michael P. Murtaugh: Genomic dissection of mucosal immunobiology in the porcine small intestine
Physiol. Genomics 28: 5-14, 2006. First published August 29, 2006; doi:10.1152/physiolgenomics.00104.2006 [Abstract] [Full Text] [PDF]

Guilherme J. M. Rosa, Natalia de Leon, and Artur J. M. Rosa: Review of microarray experimental design strategies for genetical genomics studies
Physiol. Genomics 28: 15-23, 2006. First published September 19, 2006; doi:10.1152/physiolgenomics.00106.2006 [Abstract] [Full Text] [PDF]

Tapan S. Mehta, Stanislav O. Zakharkin, Gary L. Gadbury, and David B. Allison: Epistemological issues in omics and high-dimensional biology: give the people what they want
Physiol. Genomics 28: 24-32, 2006. First published September 12, 2006; doi:10.1152/physiolgenomics.00095.2006 [Abstract] [Full Text] [PDF]

Mohamed Salem, P. Brett Kenney, Caird E. Rexroad, 3rd, and Jianbo Yao: Microarray gene expression analysis in atrophying rainbow trout muscle: a unique nonmammalian muscle degradation model
Physiol. Genomics 28: 33-45, 2006. First published August 1, 2006; doi:10.1152/physiolgenomics.00114.2006 [Abstract] [Full Text] [PDF]

Yongcai Mao, Nicole R. London, Li Ma, Daniel Dvorkin, and Yang Da: Detection of SNP epistasis effects of quantitative traits using an extended Kempthorne model
Physiol. Genomics 28: 46-52, 2006. First published August 29, 2006; doi:10.1152/physiolgenomics.00096.2006 [Abstract] [Full Text] [PDF] [Supplemental Material]

Grace M. O'Gorman, Stephen D. E. Park, Emmeline W. Hill, Kieran G. Meade, Laura C. Mitchell, Morris Agaba, John P. Gibson, Olivier Hanotte, Jan Naessens, Stephen J. Kemp, and David E. MacHugh: Cytokine mRNA profiling of peripheral blood mononuclear cells from trypanotolerant and trypanosusceptible cattle infected with Trypanosoma congolense
Physiol. Genomics 28: 53-61, 2006. First published September 19, 2006; doi:10.1152/physiolgenomics.00100.2006 [Abstract] [Full Text] [PDF]

Peter M. Saama, Osman V. Patel, Anilkumar Bettegowda, James J. Ireland, and George W. Smith: Novel algorithm for transcriptome analysis
Physiol. Genomics 28: 62-66, 2006. First published September 26, 2006; doi:10.1152/physiolgenomics.00108.2006 [Abstract] [Full Text] [PDF]

Judith T. Murphy, Sandra Sommer, Edward A. Kabara, Nitin Verman, Michael A. Kuelbs, Peter Saama, Robert Halgren, and Paul M. Coussens: Gene expression profiling of monocyte-derived macrophages following infection with Mycobacterium avium subspecies avium and Mycobacterium avium subspecies paratuberculosis
Physiol. Genomics 28: 67-75, 2006. First published October 24, 2006; doi:10.1152/physiolgenomics.00098.2006 [Abstract] [Full Text] [PDF]

Antonio Reverter, Nicholas J. Hudson, Yonghong Wang, Siok-Hwee Tan, Wes Barris, Keren A. Byrne, Sean M. McWilliam, Cynthia D. K. Bottema, Adam Kister, Paul L. Greenwood, Gregory S. Harper, Sigrid A. Lehnert, and Brian P. Dalrymple: A gene coexpression network for bovine skeletal muscle inferred from microarray data
Physiol. Genomics 28: 76-83, 2006. First published September 19, 2006; doi:10.1152/physiolgenomics.00105.2006 [Abstract] [Full Text] [PDF]

Ashraf El-Sayed, Michael Hoelker, Franca Rings, Dessie Salilew, Danyel Jennen, Ernst Tholen, Marc-André Sirard, Karl Schellander, and Dawit Tesfaye: Large-scale transcriptional analysis of bovine embryo biopsies in relation to pregnancy success after transfer to recipients
Physiol. Genomics 28: 84-96, 2006. First published October 3, 2006; doi:10.1152/physiolgenomics.00111.2006 [Abstract] [Full Text] [PDF]

P. S. D. Weber, S. A. Madsen-Bouterse, G. J. M. Rosa, S. Sipkovsky, X. Ren, P. E. Almeida, R. Kruska, R. G. Halgren, J. L. Barrick, and J. L. Burton: Analysis of the bovine neutrophil transcriptome during glucocorticoid treatment
Physiol. Genomics 28: 97-112, 2006. First published August 15, 2006; doi:10.1152/physiolgenomics.00094.2006 [Abstract] [Full Text] [PDF] [Supplementary Tables]

Letters to the Editor:

Ian N. M. Day, Santiago Rodriguez, Jana Královicová, Peter J. Wood, Igor Vorechovsky, and Tom R. Gaunt: Questioning INS VNTR role in obesity and diabetes: subclasses tag IGF2-INS-TH haplotypes; and -23HphI as a STEP (splicing and translational efficiency polymorphism)
Physiol. Genomics 28: 113, 2006. First published August 1, 2006; doi:10.1152/physiolgenomics.00126.2006 [Full Text] [PDF]

Research Articles:

M. A. Keller, S. Addya, R. Vadigepalli, B. Banini, K. Delgrosso, H. Huang, and S. Surrey: Transcriptional regulatory network analysis of developing human erythroid progenitors reveals patterns of coregulation and potential transcriptional regulators
Physiol. Genomics 28: 114-128, 2006. First published August 29, 2006; doi:10.1152/physiolgenomics.00055.2006 [Abstract] [Full Text] [PDF] [Supplementary Tables]

John J. Mullins, Linda J. Mullins, Donald R. Dunbar, William J. Brammar, Kenneth W. Gross, and Steven D. Morley: Identification of a human ortholog of the mouse Dcpp gene locus, encoding a novel member of the CSP-1/Dcpp salivary protein family
Physiol. Genomics 28: 129-140, 2006. First published September 5, 2006; doi:10.1152/physiolgenomics.00153.2006 [Abstract] [Full Text] [PDF]

Cover Caption:

Cover

Cover: Ultrafine mapping of Dyscalc1. A: localization of the quantitative trait locus, Dyscalc1 (black box), on mouse chromosome 7 between the simple sequence length polymorphism (SSLP) markers D7Mit270 and D7Mit230 using BXH-RI and congenic intercross analysis as published previously (4, 9). B: fine mapping of Dyscalc1 to 2 Mb using in silico mapping in BXH RI strains (BXH-7, BXH-8, BXH-9, and BXH-10). C: additional laboratory mouse strains allocate Dyscalc1 to ~1 Mb between the UT_7_38.436442 (39.5 Mb) and rs6379675 (40.5 Mb). D: genotyping of novel single nucleotide polymorphisms (SNPs) in NZB mice further decreased the region to 80 kb using PCR-single-strand conformation polymorphism (SSCP) analysis of genes flanking EMP-3 (highlighted in black). This 80-kb region contains the genes EMP-3, BC013491, and Abcc6. For details, see Aherrahrou Z, Doehring LC, Kaczmarek PM, Liptau H, Ehlers E-M, Pomarino A, Wrobel S, Götz A, Mayer B, Erdmann J, Schunkert H. Ultrafine mapping of Dyscalc1 to an 80-kb chromosomal segment on chromosome 7 in mice susceptible for dystrophic calcification. Physiol Genomics 28: 203-212, 2007; doi:10.1152/physiolgenomics.00133.2006.