Fiona McCarthy School of Animal and Comparative Biomedical Sciences University of Arizona Biography Publications Institution JoVE Articles Fiona McCarthy has not added a biography. If you are Fiona McCarthy and would like to personalize this page please email our Author Liaison for assistance. Publications Acute Ischemia Induced by High Density Culture Increases Cytokine Expression and Diminishes the Function and Viability of Highly Purified Human Islets of Langerhans Transplantation. Mar, 2017 | Pubmed ID: 28263224 RNA Sequencing Exposes Adaptive and Immune Responses to Intrauterine Growth Restriction in Fetal Sheep Islets Endocrinology. Apr, 2017 | Pubmed ID: 28200173 Improved Genome Assembly of American Alligator Genome Reveals Conserved Architecture of Estrogen Signaling Genome Research. May, 2017 | Pubmed ID: 28137821 Resources and Recommendations for Using Transcriptomics to Address Grand Challenges in Comparative Biology Integrative and Comparative Biology. Dec, 2016 | Pubmed ID: 27639274 HPIDB 2.0: a Curated Database for Host-pathogen Interactions Database : the Journal of Biological Databases and Curation. 2016 | Pubmed ID: 27374121 Identification of Dopamine Receptors Across the Extant Avian Family Tree and Analysis with Other Clades Uncovers a Polyploid Expansion Among Vertebrates Frontiers in Neuroscience. 2015 | Pubmed ID: 26500483 Third Report on Chicken Genes and Chromosomes 2015 Cytogenetic and Genome Research. 2015 | Pubmed ID: 26282327 Transcriptome Response to Heat Stress in a Chicken Hepatocellular Carcinoma Cell Line Cell Stress & Chaperones. Nov, 2015 | Pubmed ID: 26238561 Coordinated International Action to Accelerate Genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes Project Genome Biology. Mar, 2015 | Pubmed ID: 25854118 Transgenic Soya Bean Seeds Accumulating β-carotene Exhibit the Collateral Enhancements of Oleate and Protein Content Traits Plant Biotechnology Journal. May, 2015 | Pubmed ID: 25400247 Three Crocodilian Genomes Reveal Ancestral Patterns of Evolution Among Archosaurs Science (New York, N.Y.). Dec, 2014 | Pubmed ID: 25504731 Comparative Genome Analyses Reveal Distinct Structure in the Saltwater Crocodile MHC PloS One. 2014 | Pubmed ID: 25503521 De Novo Transcriptome Assembly and Analyses of Gene Expression During Photomorphogenesis in Diploid Wheat Triticum Monococcum PloS One. 2014 | Pubmed ID: 24821410 Inflammatory Cytokines in Human Pancreatic Cancer Cancer Letters. Apr, 2014 | Pubmed ID: 23879960 Interestingness Measures and Strategies for Mining Multi-ontology Multi-level Association Rules from Gene Ontology Annotations for the Discovery of New GO Relationships Journal of Biomedical Informatics. Oct, 2013 | Pubmed ID: 23850840 Current Clinical Immunotherapy Targets in Advanced Nonsmall Cell Lung Cancer (NSCLC) Journal of Leukocyte Biology. Dec, 2013 | Pubmed ID: 23695306 Stallion Sperm Transcriptome Comprises Functionally Coherent Coding and Regulatory RNAs As Revealed by Microarray Analysis and RNA-seq PloS One. 2013 | Pubmed ID: 23409192 Developing a Biocuration Workflow for AgBase, a Non-model Organism Database Database : the Journal of Biological Databases and Curation. 2012 | Pubmed ID: 23160411 Cross-Ontology Multi-level Association Rule Mining in the Gene Ontology PloS One. 2012 | Pubmed ID: 23071802 Sequencing Three Crocodilian Genomes to Illuminate the Evolution of Archosaurs and Amniotes Genome Biology. Jan, 2012 | Pubmed ID: 22293439 Transcriptome-based Differentiation of Closely-related Miscanthus Lines PloS One. 2012 | Pubmed ID: 22253803 Systemic Response to Campylobacter Jejuni Infection by Profiling Gene Transcription in the Spleens of Two Genetic Lines of Chickens Immunogenetics. Jan, 2012 | Pubmed ID: 21748442 The Proteogenomic Mapping Tool BMC Bioinformatics. 2011 | Pubmed ID: 21513508 AgBase: Supporting Functional Modeling in Agricultural Organisms Nucleic Acids Research. Jan, 2011 | Pubmed ID: 21075795 Analysis of Bovine Viral Diarrhea Viruses-infected Monocytes: Identification of Cytopathic and Non-cytopathic Biotype Differences BMC Bioinformatics. Oct, 2010 | Pubmed ID: 20946620 GOModeler--a Tool for Hypothesis-testing of Functional Genomics Datasets BMC Bioinformatics. Oct, 2010 | Pubmed ID: 20946613 Proteome Profile of the Developing Maize (Zea Mays L.) Rachis Proteomics. Aug, 2010 | Pubmed ID: 20662101 Re-annotation is an Essential Step in Systems Biology Modeling of Functional Genomics Data PloS One. May, 2010 | Pubmed ID: 20498845 Transcriptional and Pathway Analysis in the Hypothalamus of Newly Hatched Chicks During Fasting and Delayed Feeding BMC Genomics. Mar, 2010 | Pubmed ID: 20214824 Structural and Functional-annotation of an Equine Whole Genome Oligoarray BMC Bioinformatics. Oct, 2009 | Pubmed ID: 19811692 Facilitating Functional Annotation of Chicken Microarray Data BMC Bioinformatics. Oct, 2009 | Pubmed ID: 19811685 The Chicken Gene Nomenclature Committee Report BMC Genomics. Jul, 2009 | Pubmed ID: 19607656 Introduction to the Proceedings of the Avian Genomics and Gene Ontology Annotation Workshop BMC Genomics. Jul, 2009 | Pubmed ID: 19607650 Understanding Animal Viruses Using the Gene Ontology Trends in Microbiology. Jul, 2009 | Pubmed ID: 19577474 ArrayIDer: Automated Structural Re-annotation Pipeline for DNA Microarrays BMC Bioinformatics. Jan, 2009 | Pubmed ID: 19166590 Sequential Detergent Extraction Prior to Mass Spectrometry Analysis Methods in Molecular Biology (Clifton, N.J.). 2009 | Pubmed ID: 19153687 The Essential and Non-essential Genes of Bovine Herpesvirus 1 The Journal of General Virology. Nov, 2008 | Pubmed ID: 18931083 Gene Ontology Annotation Quality Analysis in Model Eukaryotes Nucleic Acids Research. Feb, 2008 | Pubmed ID: 18187504 Prediction of Peptides Observable by Mass Spectrometry Applied at the Experimental Set Level BMC Bioinformatics. Nov, 2007 | Pubmed ID: 18047723 Experimental-confirmation and Functional-annotation of Predicted Proteins in the Chicken Genome BMC Genomics. Nov, 2007 | Pubmed ID: 18021451 Non-electrophoretic Differential Detergent Fractionation Proteomics Using Frozen Whole Organs Rapid Communications in Mass Spectrometry : RCM. 2007 | Pubmed ID: 17990261 AgBase: a Unified Resource for Functional Analysis in Agriculture Nucleic Acids Research. Jan, 2007 | Pubmed ID: 17135208 AgBase: a Functional Genomics Resource for Agriculture BMC Genomics. 2006 | Pubmed ID: 16961921 Modeling a Whole Organ Using Proteomics: the Avian Bursa of Fabricius Proteomics. May, 2006 | Pubmed ID: 16596704 Differential Detergent Fractionation for Non-electrophoretic Eukaryote Cell Proteomics Journal of Proteome Research. Mar-Apr, 2005 | Pubmed ID: 15822906 Genetic Analysis of Bovine Viral Diarrhoea Viruses from Australia Veterinary Microbiology. Mar, 2005 | Pubmed ID: 15737468 Construction of a Gene Inactivation Library for Bovine Herpesvirus 1 Using Infectious Clone Technology Methods in Molecular Biology (Clifton, N.J.). 2005 | Pubmed ID: 15507722 Rapid and Efficient Construction of Recombinant Bovine Herpesvirus 1 Genomes Journal of Virological Methods. Feb, 2003 | Pubmed ID: 12505643 Construction and Manipulation of an Infectious Clone of the Bovine Herpesvirus 1 Genome Maintained As a Bacterial Artificial Chromosome Journal of Virology. Jul, 2002 | Pubmed ID: 12050379 Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms Blake L. Joyce1,2, Asher K. Haug-Baltzell3, Jonathan P. Hulvey4, Fiona McCarthy5, Upendra Kumar Devisetty1,6, Eric Lyons1,2,3 1BIO5 Institute, University of Arizona, 2The School of Plant Sciences, University of Arizona, 3Genetics GIDP, University of Arizona, 4Biology Department, University of Massachusetts Amherst, 5School of Animal and Comparative Biomedical Sciences, University of Arizona, 6CyVerse, University of Arizona JoVE 55009 Genetics
Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved (Non-model) Organisms Blake L. Joyce1,2, Asher K. Haug-Baltzell3, Jonathan P. Hulvey4, Fiona McCarthy5, Upendra Kumar Devisetty1,6, Eric Lyons1,2,3 1BIO5 Institute, University of Arizona, 2The School of Plant Sciences, University of Arizona, 3Genetics GIDP, University of Arizona, 4Biology Department, University of Massachusetts Amherst, 5School of Animal and Comparative Biomedical Sciences, University of Arizona, 6CyVerse, University of Arizona JoVE 55009 Genetics
