The University of Arizona

Fiona McCarthy

 

Fiona M McCarthy
 
B.Sc – University of Queensland
B.Sc Hons (Genetics) – University of Queensland
Ph.D (Virology) – University of Queensland
Associate Professor
 
School of Animal and Comparative Biomedical Sciences
University of Arizona
Tucson, Arizona 85721
(520)621-7321(voice), (520)626-5602(fax)
 
Research Interests
 
Trained in molecular biology and virology, my current research interest focuses more on bioinformatics and genomics. I am a co-founder and current PI of AgBase, a database that provides functional annotation, tools and support for agricultural researchers dealing with large scale data sets that they wish to functionally model. As part of this work, we provide Gene Ontology (GO) data to the GO Consortium for several agricultural species, foremost amongst them chicken, cow and cotton. Other bioinformatics, biocuration and genomics projects include providing standardized chicken gene nomenclature; looking at tissue specific expression in chicken using transcriptomics, proteomics and proteogenomic mapping; developing genomic resources for alligator, crocodile and gharial genome projects; identification and functional analysis of chicken miRNAs; and developing new visualization interfaces for pathways analysis. I am also affiliated with BIO5 and working to develop tools for functional annotation and analysis that can be deployed to the iPlant/iAnimal platform. I am interested in developing better resources for analysis of host-pathogen interactions in disease.
 
Courses Taught
 
<coming soon>
 
Lab Members
 
In Arizona:
Amanda Cooksey - Research Technician
Ken Pendarvis - Research Technician
 
In Mississippi:
Teresia Buza – Postdoctoral Associate
Cathy Gresham – Database Manager
Lakshmi Pillai - Research Technician (Biocurator)
Hui Wang - Research Technician (Biocurator)
Carole Nail - Research Technician (Biocurator)
 
 
Selected Publications
 
Pillai L, Chouvarine P, Tudor CO, Schmidt CJ, Vijay-Shanker K, McCarthy FM.
Database (Oxford). 2012 Nov 17;2012:bas038.
 
St John JA, Braun EL, Isberg SR, Miles LG, Chong AY, Gongora J, Dalzell P, Moran C, Bed'hom B, Abzhanov A, Burgess SC, Cooksey AM, Castoe TA, Crawford NG, Densmore LD, Drew JC, Edwards SV, Faircloth BC, Fujita MK, Greenwold MJ, Hoffmann FG, Howard JM, Iguchi T, Janes DE, Khan SY, Kohno S, de Koning AJ, Lance SL, McCarthy FM, McCormack JE, Merchant ME, Peterson DG, Pollock DD, Pourmand N, Raney BJ, Roessler KA, Sanford JR, Sawyer RH, Schmidt CJ, Triplett EW, Tuberville TD, Venegas-Anaya M, Howard JT, Jarvis ED, Guillette LJ Jr, Glenn TC, Green RE, Ray DA.
Genome Biol. 2012 Jan 31;13(1):415.
 
Manda P, Ozkan S, Wang H, McCarthy F, Bridges SM.
PLoS One. 2012;7(10):e47411.
 
McCarthy FM, Gresham CR, Buza TJ, Chouvarine P, Pillai LR, Kumar R, Ozkan S, Wang H, Manda P, Arick T, Bridges SM, Burgess SC.
Nucleic Acids Res. 2011 Jan;39(Database issue):D497-506.
 
Ammari M, McCarthy FM, Nanduri B, Pinchuk LM.
BMC Bioinformatics. 2010 Oct 7;11 Suppl 6:S9.
 
Manda P, Freeman MG, Bridges SM, Jankun-Kelly TJ, Nanduri B, McCarthy FM, Burgess SC.
BMC Bioinformatics. 2010 Oct 7;11 Suppl 6:S29.
 
van den Berg BH, McCarthy FM, Lamont SJ, Burgess SC.
PLoS One. 2010 May 14;5(5):e10642.
 
Higgins SE, Ellestad LE, Trakooljul N, McCarthy F, Saliba J, Cogburn LA, Porter TE.
BMC Genomics. 2010 Mar 9;11:162.
 
Bright LA, Burgess SC, Chowdhary B, Swiderski CE, McCarthy FM.
BMC Bioinformatics. 2009 Oct 8;10 Suppl 11:S8.
 
Buza TJ, Kumar R, Gresham CR, Burgess SC, McCarthy FM.
BMC Bioinformatics. 2009 Oct 8;10 Suppl 11:S2.
 
Burt DW, Carrë W, Fell M, Law AS, Antin PB, Maglott DR, Weber JA, Schmidt CJ, Burgess SC, McCarthy FM.
BMC Genomics. 2009 Jul 14;10 Suppl 2:S5.
 
McCarthy FM, Mahony TJ, Parcells MS, Burgess SC.
Trends Microbiol. 2009 Jul;17(7):328-35