Andrey A Ptitsyn

Summary

Affiliation: Colorado State University
Country: USA

Publications

  1. pmc Circadian clocks are resounding in peripheral tissues
    Andrey A Ptitsyn
    Experimental Obesity Laboratory, Louisiana State University Pennington Biomedical Research Center, Baton Rouge, Louisiana, USA
    PLoS Comput Biol 2:e16. 2006
  2. pmc Rhythms and synchronization patterns in gene expression in the Aedes aegypti mosquito
    Andrey A Ptitsyn
    Center for Bioinformatics, Colorado State University, Fort Collins, CO 80525, USA
    BMC Genomics 12:153. 2011
  3. pmc Transformation of metabolism with age and lifestyle in Antarctic seals: a case study of systems biology approach to cross-species microarray experiment
    Andrey Ptitsyn
    Colorado State University Department of Biology, Fort Collins, CO 80523, USA
    BMC Syst Biol 4:133. 2010
  4. pmc Small RNA profiling of Dengue virus-mosquito interactions implicates the PIWI RNA pathway in anti-viral defense
    Ann M Hess
    Department of Statistics, Colorado State University, Fort Collins, Colorado 80523, USA
    BMC Microbiol 11:45. 2011
  5. doi request reprint True or false: all genes are rhythmic
    Andrey A Ptitsyn
    Center for Bioinformatics, Colorado State University, Fort Collins, CO 80525, USA
    Ann Med 43:1-12. 2011
  6. pmc Computational analysis of gene expression space associated with metastatic cancer
    Andrey Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, Colorado State University, Campus delivery 1682 Fort Collins, CO 80523, USA
    BMC Bioinformatics 10:S6. 2009
  7. pmc Systems biology approach to identification of biomarkers for metastatic progression in cancer
    Andrey A Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, Colorado State University, Colorado, USA
    BMC Bioinformatics 9:S8. 2008
  8. pmc Comprehensive analysis of circadian periodic pattern in plant transcriptome
    Andrey Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, Colorado State University, Campus delivery 1682 Fort Collins, CO 80523, USA
    BMC Bioinformatics 9:S18. 2008
  9. pmc Stochastic resonance reveals "pilot light" expression in mammalian genes
    Andrey Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, College of Veterinary and Biomedical Sciences, Colorado State University, Fort Collins, Colorado, United States of America
    PLoS ONE 3:e1842. 2008
  10. pmc Analysis of circadian pattern reveals tissue-specific alternative transcription in leptin signaling pathway
    Andrey A Ptitsyn
    Experimental Obesity Laboratory, Louisiana State University Pennington Biomedical Research Center, 6400 Perkins Rd, Baton Rouge, LA 70808, USA
    BMC Bioinformatics 8:S15. 2007

Detail Information

Publications26

  1. pmc Circadian clocks are resounding in peripheral tissues
    Andrey A Ptitsyn
    Experimental Obesity Laboratory, Louisiana State University Pennington Biomedical Research Center, Baton Rouge, Louisiana, USA
    PLoS Comput Biol 2:e16. 2006
    ..We conclude that greater attention should be given to the potential influence of circadian mechanisms on any biological pathway related to metabolism and obesity...
  2. pmc Rhythms and synchronization patterns in gene expression in the Aedes aegypti mosquito
    Andrey A Ptitsyn
    Center for Bioinformatics, Colorado State University, Fort Collins, CO 80525, USA
    BMC Genomics 12:153. 2011
    ..Circadian gene expression in mosquito species has been previously reported but for only a few genes directly involved in the function of the molecular clock...
  3. pmc Transformation of metabolism with age and lifestyle in Antarctic seals: a case study of systems biology approach to cross-species microarray experiment
    Andrey Ptitsyn
    Colorado State University Department of Biology, Fort Collins, CO 80523, USA
    BMC Syst Biol 4:133. 2010
    ..However, the analysis of gene expression in seals is hampered by the lack of specific microarrays and the very limited annotation of known Weddell seal (Leptonychotes weddellii) genes...
  4. pmc Small RNA profiling of Dengue virus-mosquito interactions implicates the PIWI RNA pathway in anti-viral defense
    Ann M Hess
    Department of Statistics, Colorado State University, Fort Collins, Colorado 80523, USA
    BMC Microbiol 11:45. 2011
    ..aegypti, we deep-sequenced small non-coding RNAs. Triplicate biological replicates were used so that rigorous statistical metrics could be applied...
  5. doi request reprint True or false: all genes are rhythmic
    Andrey A Ptitsyn
    Center for Bioinformatics, Colorado State University, Fort Collins, CO 80525, USA
    Ann Med 43:1-12. 2011
    ....
  6. pmc Computational analysis of gene expression space associated with metastatic cancer
    Andrey Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, Colorado State University, Campus delivery 1682 Fort Collins, CO 80523, USA
    BMC Bioinformatics 10:S6. 2009
    ..A number of recent studies have identified multiple biomarkers for metastatic progression. However, most of the studies consider only direct comparison between metastatic and non-metastatic classes of samples...
  7. pmc Systems biology approach to identification of biomarkers for metastatic progression in cancer
    Andrey A Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, Colorado State University, Colorado, USA
    BMC Bioinformatics 9:S8. 2008
    ..Previous studies of gene expression patterns in metastasis have concentrated on selection of a small number of "signature" biomarkers...
  8. pmc Comprehensive analysis of circadian periodic pattern in plant transcriptome
    Andrey Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, Colorado State University, Campus delivery 1682 Fort Collins, CO 80523, USA
    BMC Bioinformatics 9:S18. 2008
    ..Circadian rhythm is a crucial factor in orchestration of plant physiology, keeping it in synchrony with the daylight cycle. Previous studies have reported that up to 16% of plant transcriptome are circadially expressed...
  9. pmc Stochastic resonance reveals "pilot light" expression in mammalian genes
    Andrey Ptitsyn
    Center for Bioinformatics, Department of Microbiology, Immunology and Pathology, College of Veterinary and Biomedical Sciences, Colorado State University, Fort Collins, Colorado, United States of America
    PLoS ONE 3:e1842. 2008
    ..The resolution ability of this method is limited by the background noise. Low expressed genes are detected with insufficient reliability and expression of many genes is never detected at all...
  10. pmc Analysis of circadian pattern reveals tissue-specific alternative transcription in leptin signaling pathway
    Andrey A Ptitsyn
    Experimental Obesity Laboratory, Louisiana State University Pennington Biomedical Research Center, 6400 Perkins Rd, Baton Rouge, LA 70808, USA
    BMC Bioinformatics 8:S15. 2007
    ..It has been previously reported that most mammalian genes display a circadian oscillation in their baseline expression. Consequently, the phase and amplitude of each component of a signal transduction cascade has downstream consequences...
  11. pmc Digital signal processing reveals circadian baseline oscillation in majority of mammalian genes
    Andrey A Ptitsyn
    Department of Microbiology, Immunology and Pathology, College of Veterinary and Biomedical Sciences, Colorado State University, Fort Collins, Colorado, United States of America
    PLoS Comput Biol 3:e120. 2007
    ..Changes in gene expression caused by mutations or regulation of environmental factors (such as photic stimuli or feeding) should be considered in the context of changes in the amplitude and phase of genetic oscillations...
  12. pmc Unsupervised clustering of gene expression data points at hypoxia as possible trigger for metabolic syndrome
    Andrey Ptitsyn
    Department of Microbiology, Immunology and Pathology, Colorado State University, Fort Collins, CO 80523, USA
    BMC Genomics 7:318. 2006
    ..Classification of large volumes of data produced in a microarray experiment allows for the extraction of important clues as to the nature of a disease...
  13. ncbi request reprint Characterization of peripheral circadian clocks in adipose tissues
    Sanjin Zvonic
    Stem Cell Laboratory, Louisiana State University, Pennington Biomedical Research Center, Baton Rouge, LA, USA
    Diabetes 55:962-70. 2006
    ....
  14. pmc Permutation test for periodicity in short time series data
    Andrey A Ptitsyn
    Experimental Obesity Laboratory, Louisiana State University Pennington Biomedical Research Center, 6400 Perkins Rd, Baton Rouge, LA 70808, USA
    BMC Bioinformatics 7:S10. 2006
    ..The data produced in these experiments carries a high degree of stochastic variation, obscuring the periodic pattern and a limited number of replicates, typically covering not more than two complete periods of oscillation...
  15. pmc Biological aging alters circadian mechanisms in murine adipose tissue depots
    Gregory M Sutton
    Protein Deficiency and Developmental Biology Laboratory, Pennington Biomedical Research Center, Louisiana State University System, 6400 Perkins Rd, Baton Rouge, LA 70808, USA
    Age (Dordr) 35:533-47. 2013
    ....
  16. doi request reprint A systems biology approach to identify molecular pathways altered by HDAC inhibition in osteosarcoma
    Luke A Wittenburg
    Animal Cancer Center, Department of Clinical Sciences, Colorado State University Animal Cancer Center, 300 W Drake Rd, Fort Collins, Colorado 80523 1620, USA
    J Cell Biochem 113:773-83. 2012
    ....
  17. doi request reprint Circadian rhythms in adipose tissue: an update
    Jeffrey M Gimble
    Stem Cell Biology Laboratory, Pennington Biomedical Research Center, Baton Rouge, LA 70808, USA
    Curr Opin Clin Nutr Metab Care 14:554-61. 2011
    ..This review highlights recent in-vitro and in-vivo findings from murine, human and model organism studies...
  18. doi request reprint Maternal and fetal response to fetal persistent infection with bovine viral diarrhea virus
    Thomas R Hansen
    Animal Reproduction and Biotechnology Laboratory, Department of Biomedical Sciences, College of Veterinary Medicine and Biomedical Sciences, Colorado State University, Fort Collins, CO 80523, USA
    Am J Reprod Immunol 64:295-306. 2010
    ..This results in induction of immune tolerance to the infecting BVDV strain and persistent infection (PI)...
  19. doi request reprint Yield and characterization of subcutaneous human adipose-derived stem cells by flow cytometric and adipogenic mRNA analyzes
    Gang Yu
    Pennington Biomedical Research Center, Louisiana State University System, Baton Rouge, Louisiana 70808, USA
    Cytotherapy 12:538-46. 2010
    ..This study reports our recent experience of isolating and immunophenotypically characterizing ASC from >60 human patients with a mean age of 43.6 and body mass index (BMI) of 27...
  20. pmc Persistent fetal infection with bovine viral diarrhea virus differentially affects maternal blood cell signal transduction pathways
    Natalia P Smirnova
    Department of Biomedical Sciences, College of Veterinary Medicine and Biomedical Sciences, Colorado State University, Fort Collins, Colorado 80523 1683, USA
    Physiol Genomics 36:129-39. 2009
    ....
  21. doi request reprint Prospective influences of circadian clocks in adipose tissue and metabolism
    Jeffrey M Gimble
    Stem Cell Biology Laboratory, Pennington Biomedical Research Center, 6400 Perkins Road, Baton Rouge, LA 70808, USA
    Nat Rev Endocrinol 7:98-107. 2011
    ..Thus, circadian mechanisms represent a novel putative target for therapy in patients with metabolic diseases...
  22. pmc Expression profiling in canine osteosarcoma: identification of biomarkers and pathways associated with outcome
    Liza E O'Donoghue
    Department of Clinical Sciences, Colorado State University, Fort Collins, Colorado, USA
    BMC Cancer 10:506. 2010
    ..Unfortunately, OSA is an aggressive cancer with a high metastatic rate. Characterization of OSA with regard to its metastatic potential and chemotherapeutic resistance will improve both prognostic capabilities and treatment modalities...
  23. ncbi request reprint Circadian expression of genes regulating food intake
    Adrian M Stütz
    Pennington Biomedical Research Center, 6400 Perkins Road, Baton Rouge, LA 70808, USA
    Obesity (Silver Spring) 15:607-15. 2007
    ..In the present study, we examined the circadian expression profiles of these genes...
  24. ncbi request reprint Class discovery analysis of the lung cancer gene expression data
    Andrey Ptitsyn
    Pennington Biomedical Research Center, Baton Rouge, Louisiana 70808, USA
    DNA Cell Biol 23:715-21. 2004
    ..These subtypes should be taken into account in diagnostics, drug testing, and treatment development for lung cancer patients...
  25. pmc CLU: a new algorithm for EST clustering
    Andrey Ptitsyn
    Pennington Biomedical Research Center, 6400 Perkins Rd, Baton Rouge LA 70808, USA
    BMC Bioinformatics 6:S3. 2005
    ..Clustered EST data, accumulated in databases such as UniGene, STACK and TIGR Gene Indices have proven to be crucial in research areas from gene discovery to regulation of gene expression...
  26. ncbi request reprint Circadian oscillation of gene expression in murine calvarial bone
    Sanjin Zvonic
    Stem Cell Biology Laboratory, Pennington Biomedical Research Center, Louisiana State University System, Baton Rouge 70808, USA
    J Bone Miner Res 22:357-65. 2007
    ..Thus, circadian mechanisms may directly modulate oxidative phosphorylation and multiple metabolic pathways in bone homeostasis...