Nicholas J Hudson

Summary

Country: Australia

Publications

  1. pmc Musical beauty and information compression: Complex to the ear but simple to the mind?
    Nicholas J Hudson
    Computational and Systems Biology, CSIRO Livestock Industries, 306 Carmody Road, St, Lucia, Brisbane, Queensland 4067, Australia
    BMC Res Notes 4:9. 2011
  2. doi request reprint RNF14 is a regulator of mitochondrial and immune function in muscle
    Aaron B Ingham
    CSIRO Animal, Food and Health Sciences, 306 Carmody Road, St, Lucia, Queensland, Australia
    BMC Syst Biol 8:10. 2014
  3. pmc An Always Correlated gene expression landscape for ovine skeletal muscle, lessons learnt from comparison with an "equivalent" bovine landscape
    Wei Sun
    Animal Science and Technology College, Yangzhou University, Yangzhou 225009, China
    BMC Res Notes 5:632. 2012
  4. doi request reprint Inferring the in vivo cellular program of developing bovine skeletal muscle from expression data
    Nicholas J Hudson
    Computational and Systems Biology Group, CSIRO Food Futures and CSIRO Animal, Food and Health Sciences, 306 Carmody Road, St Lucia, QLD 4072, Australia
    Gene Expr Patterns 13:109-25. 2013
  5. pmc Beyond differential expression: the quest for causal mutations and effector molecules
    Nicholas J Hudson
    Computational and Systems BiologyCSIRO Livestock Industries, 306 Carmody Road St, Lucia, Brisbane, QLD 4067, Australia
    BMC Genomics 13:356. 2012
  6. pmc Eukaryotic evolutionary transitions are associated with extreme codon bias in functionally-related proteins
    Nicholas J Hudson
    Computational and Systems Biology, CSIRO Livestock Industries, Queensland Bioscience Precinct, St Lucia, Brisbane, Queensland, Australia
    PLoS ONE 6:e25457. 2011
  7. ncbi request reprint Lessons from an estivating frog: sparing muscle protein despite starvation and disuse
    Nicholas J Hudson
    Commonwealth Scientific and Industrial Research Organization Livestock Industries, 306 Carmody Rd, St Lucia, Brisbane, Queensland 4072, Australia
    Am J Physiol Regul Integr Comp Physiol 290:R836-43. 2006
  8. ncbi request reprint Skeletal muscle extracellular matrix remodelling after aestivation in the green striped burrowing frog, Cyclorana alboguttata
    Nicholas J Hudson
    CSIRO Livestock Industries, 306 Carmody Road, St Lucia, Brisbane, Queensland 4072, Australia
    Comp Biochem Physiol A Mol Integr Physiol 146:440-5. 2007
  9. doi request reprint Epigenetic silencers are enriched in dormant desert frog muscle
    Nicholas J Hudson
    CSIRO Livestock Industries, Brisbane, QLD, Australia
    J Comp Physiol B 178:729-34. 2008
  10. pmc Inferring the transcriptional landscape of bovine skeletal muscle by integrating co-expression networks
    Nicholas J Hudson
    Food Futures Flagship and Livestock Industries, Commonwealth Scientific and Industrial Research Organisation, Queensland Bioscience Precinct, St Lucia, Brisbane, Queensland, Australia
    PLoS ONE 4:e7249. 2009

Collaborators

Detail Information

Publications27

  1. pmc Musical beauty and information compression: Complex to the ear but simple to the mind?
    Nicholas J Hudson
    Computational and Systems Biology, CSIRO Livestock Industries, 306 Carmody Road, St, Lucia, Brisbane, Queensland 4067, Australia
    BMC Res Notes 4:9. 2011
    ..For example, why is Ludwig Van Beethoven considered a musical genius but Kylie Minogue is not? Possible answers to these questions will be framed in the context of Information Theory...
  2. doi request reprint RNF14 is a regulator of mitochondrial and immune function in muscle
    Aaron B Ingham
    CSIRO Animal, Food and Health Sciences, 306 Carmody Road, St, Lucia, Queensland, Australia
    BMC Syst Biol 8:10. 2014
    ..However, our understanding of their molecular control is incomplete...
  3. pmc An Always Correlated gene expression landscape for ovine skeletal muscle, lessons learnt from comparison with an "equivalent" bovine landscape
    Wei Sun
    Animal Science and Technology College, Yangzhou University, Yangzhou 225009, China
    BMC Res Notes 5:632. 2012
    ..Does this approach facilitate interspecies comparison of networks?..
  4. doi request reprint Inferring the in vivo cellular program of developing bovine skeletal muscle from expression data
    Nicholas J Hudson
    Computational and Systems Biology Group, CSIRO Food Futures and CSIRO Animal, Food and Health Sciences, 306 Carmody Road, St Lucia, QLD 4072, Australia
    Gene Expr Patterns 13:109-25. 2013
    ..Overall, despite differences in size, metabolism and physiology, the muscle structural subunit expression program appears very similar in ruminants, rodents and humans...
  5. pmc Beyond differential expression: the quest for causal mutations and effector molecules
    Nicholas J Hudson
    Computational and Systems BiologyCSIRO Livestock Industries, 306 Carmody Road St, Lucia, Brisbane, QLD 4067, Australia
    BMC Genomics 13:356. 2012
    ..We explain why, for various reasons, no other currently available experimental techniques or quantitative analyses are capable of reaching these conclusions...
  6. pmc Eukaryotic evolutionary transitions are associated with extreme codon bias in functionally-related proteins
    Nicholas J Hudson
    Computational and Systems Biology, CSIRO Livestock Industries, Queensland Bioscience Precinct, St Lucia, Brisbane, Queensland, Australia
    PLoS ONE 6:e25457. 2011
    ..We propose that extreme codon bias in groups of genes that encode functionally related proteins has a pathway-level energetic explanation...
  7. ncbi request reprint Lessons from an estivating frog: sparing muscle protein despite starvation and disuse
    Nicholas J Hudson
    Commonwealth Scientific and Industrial Research Organization Livestock Industries, 306 Carmody Rd, St Lucia, Brisbane, Queensland 4072, Australia
    Am J Physiol Regul Integr Comp Physiol 290:R836-43. 2006
    ..Pyruvate dehydrogenase kinase 4 transcription was fourfold lower in estivators (P = 0.11), implying that, in contrast to mammalian hibernators, this enzyme does not drive the combustion of lipids that helps spare hypometabolic muscle...
  8. ncbi request reprint Skeletal muscle extracellular matrix remodelling after aestivation in the green striped burrowing frog, Cyclorana alboguttata
    Nicholas J Hudson
    CSIRO Livestock Industries, 306 Carmody Road, St Lucia, Brisbane, Queensland 4072, Australia
    Comp Biochem Physiol A Mol Integr Physiol 146:440-5. 2007
    ..Their main impact is to maintain proportional representation of extracellular matrix components of skeletal muscle and therefore preserve the active frog phenotype...
  9. doi request reprint Epigenetic silencers are enriched in dormant desert frog muscle
    Nicholas J Hudson
    CSIRO Livestock Industries, Brisbane, QLD, Australia
    J Comp Physiol B 178:729-34. 2008
    ....
  10. pmc Inferring the transcriptional landscape of bovine skeletal muscle by integrating co-expression networks
    Nicholas J Hudson
    Food Futures Flagship and Livestock Industries, Commonwealth Scientific and Industrial Research Organisation, Queensland Bioscience Precinct, St Lucia, Brisbane, Queensland, Australia
    PLoS ONE 4:e7249. 2009
    ..In muscle a small number of well characterised transcription factors are proposed to regulate development. Therefore, muscle appears to be a tractable system for proposing new computational approaches...
  11. doi request reprint Activity, abundance, distribution and expression of Na+/K+-ATPase in the salt glands of Crocodylus porosus following chronic saltwater acclimation
    Rebecca L Cramp
    School of Biological Sciences, The University of Queensland, Brisbane, QLD 4072, Australia
    J Exp Biol 213:1301-8. 2010
    ..These data suggest that either chronic SW acclimation does not affect NKA in crocodile salt glands in the same manner as seen in other models or crocodiles possess the capacity to moderate NKA activity following prolonged exposure to SW...
  12. ncbi request reprint Role of calcium and vesicle-docking proteins in remobilising dormant neuromuscular junctions in desert frogs
    Nickolas A Lavidis
    School of Biomedical Sciences, The University of Queensland, Brisbane, QLD 4072, Australia
    J Comp Physiol A Neuroethol Sens Neural Behav Physiol 194:27-37. 2008
    ..Neuromuscular remobilisation after dormancy in C. alboguttata is more likely a product of rapidly reversible physiologic mechanisms than reorganisations of the neuromuscular transcriptome...
  13. pmc Genome-wide patterns of promoter sharing and co-expression in bovine skeletal muscle
    Quan Gu
    Computational and Systems Biology, CSIRO Food Futures Flagship and CSIRO Livestock Industries, 306 Carmody Rd, St Lucia, Brisbane, Queensland 4067, Australia
    BMC Genomics 12:23. 2011
    ..To better understand how the genetic code controls gene expression in bovine muscle we associated gene expression data from developing Longissimus thoracis et lumborum skeletal muscle with bovine promoter sequence information...
  14. pmc A differential wiring analysis of expression data correctly identifies the gene containing the causal mutation
    Nicholas J Hudson
    Food Futures Flagship and Livestock Industries, Commonwealth Scientific and Industrial Research Organisation, Queensland Bioscience Precinct, St Lucia Brisbane, Queensland, Australia
    PLoS Comput Biol 5:e1000382. 2009
    ..In contrast to other published methods that compare co-expression networks, significance testing is not used to eliminate connections...
  15. doi request reprint Skeletal muscle atrophy occurs slowly and selectively during prolonged aestivation in Cyclorana alboguttata (Gunther 1867)
    Beth L Mantle
    University of Queensland, St Lucia, Australia
    J Exp Biol 212:3664-72. 2009
    ....
  16. doi request reprint Regulatory impact factors: unraveling the transcriptional regulation of complex traits from expression data
    Antonio Reverter
    Bioinformatics Group, CSIRO Livestock Industries, Queensland Bioscience Precinct, 306 Carmody Road, St Lucia, Brisbane, Queensland 4067, Australia
    Bioinformatics 26:896-904. 2010
    ..In order to fill this gap, we propose a regulatory impact factor (RIF) metric to identify critical TF from gene expression data...
  17. doi request reprint Surviving the drought: burrowing frogs save energy by increasing mitochondrial coupling
    Sara M Kayes
    School of Biological Sciences, The University of Queensland, Brisbane, QLD 4072, Australia
    J Exp Biol 212:2248-53. 2009
    ..Cyclorana alboguttata can survive in a dormant state for several years and we propose the hypothesis that energy efficiency is increased during aestivation...
  18. ncbi request reprint A gene coexpression network for bovine skeletal muscle inferred from microarray data
    Antonio Reverter
    Bioinformatics Group, Commonwealth Scientific and Industrial Research Organisation Livestock Industries, Queensland Bioscience Precinct, 306 Carmody Road, St Lucia, QLD 4067, Australia
    Physiol Genomics 28:76-83. 2006
    ..Our results not only recapitulate the known biology of muscle but have also started to reveal some of the underlying associations between and within the structural components of skeletal muscle...
  19. ncbi request reprint Obese humans as economically designed feed converters: symmorphosis and low oxidative capacity skeletal muscle
    Nicholas J Hudson
    CSIRO Livestock Industries, Queensland Bioscience Precinct, 306 Carmody Road, Brisbane, Queensland, Australia
    Med Hypotheses 70:693-7. 2008
    ....
  20. ncbi request reprint Effect of prolonged inactivity on skeletal motor nerve terminals during aestivation in the burrowing frog, Cyclorana alboguttata
    Nicholas J Hudson
    School of Life Sciences, The University of Queensland, QLD, Brisbane 4072, Australia
    J Comp Physiol A Neuroethol Sens Neural Behav Physiol 191:373-9. 2005
    ..The impact of this suite of neuromuscular characteristics on the locomotor performance of emergent frogs is discussed...
  21. pmc Gene expression studies of developing bovine longissimus muscle from two different beef cattle breeds
    Sigrid A Lehnert
    Cooperative Research Centre for Cattle and Beef Quality, Australia
    BMC Dev Biol 7:95. 2007
    ....
  22. pmc Porcine tissue-specific regulatory networks derived from meta-analysis of the transcriptome
    Dafne Pérez-Montarelo
    Computational and Systems Biology, Commonwealth Scientific and Industrial Research Organisation CSIRO Animal, Food and Health Sciences, Queensland Bioscience Precinct, St Lucia, Brisbane, Queensland, Australia
    PLoS ONE 7:e46159. 2012
    ..Together, our results recapitulate the known biology behind tissue specificity and provide new valuable insights in a less studied but valuable model species...
  23. ncbi request reprint Effect of aestivation on long bone mechanical properties in the green-striped burrowing frog, Cyclorana alboguttata
    Nicholas J Hudson
    School of Life Sciences, The University of Queensland, Brisbane, Queensland 4072, Australia
    J Exp Biol 207:475-82. 2004
    ..This preservation of bone tissue properties enables C. alboguttata to compress the active portions of their life history into unpredictable windows of opportunity, whenever heavy rains occur...
  24. ncbi request reprint Maintaining muscle mass during extended disuse: aestivating frogs as a model species
    Nicholas J Hudson
    Physiological Ecology Laboratory, Department of Zoology and Entomology, The University of Queensland, Brisbane, QLD 4072, Australia
    J Exp Biol 205:2297-303. 2002
    ..In the light of these findings, the role of reactive oxygen species and antioxidants during muscle disuse is emphasised...
  25. doi request reprint Information compression exploits patterns of genome composition to discriminate populations and highlight regions of evolutionary interest
    Nicholas J Hudson
    Computational and Systems Biology, CSIRO Animal, Food and Health Sciences, St, Lucia, Brisbane, QLD 4067, Australia
    BMC Bioinformatics 15:66. 2014
    ..These patterns can be quantified by compression efficiency (CE). In principle, the composition of an entire genome can be represented by a CE number quantifying allele representation and order...
  26. ncbi request reprint The effects of saltwater acclimation on neurotransmitters in the lingual salt glands of the estuarine crocodile, Crocodylus porosus
    Rebecca L Cramp
    School of Integrative Biology, The University of Queensland, St Lucia, 4072, Queensland, Australia
    Regul Pept 140:55-64. 2007
    ..In addition, we sought to determine whether there was any evidence for the adaptation of the C. porosus salt gland nervous system to hyperosmotic conditions...
  27. pmc Preservation of three-dimensional capillary structure in frog muscle during aestivation
    Nicholas J Hudson
    The School of Life Sciences, The University of Queensland, Brisbane 4072, Australia
    J Anat 202:471-4. 2003
    ..alboguttata. The preservation of capillary structure in the hindlimb muscles of C. alboguttata in part accounts for their remarkable ability to emerge with a fully competent locomotor system after prolonged immobilization...