The value of a genome sequence for biomedical comparative and functional genomics research entirely depends on the quality and accessibility of its annotation and on having approved symbols for each gene. This proposal significantly addresses the fundamental problems preventing the optimal utilization of the chicken genome sequence for comparative biology and functional genomics studies. The chicken genome was sequenced by NIH in 2004 because the chicken is the foremost non-mammalian vertebrate biomedical model organism and it is a principal biomedical model for understanding basic biology, behavior and disease. It is the de-facto model bird genome and it occupies a unique and important evolutionary niche. The chicken is an important model for comparative and evolutionary genomics. Chicken research has made seminal contributions to biomedicine. However, the chicken genome lacks comprehensive annotation and standardized gene symbols are not consistently used. This lack of genome annotation significantly prevents researchers from exploiting the full potential of the chicken genome model system for comparative and functional genomic studies. We will improve the chicken genome annotation by integrating high-throughput experimental data with standardized gene symbols and Gene Ontology functional-annotation. Our experimental-annotation will be a significant step towards fulfilling the research community need for a more comprehensively-annotated avian genome sequence. We will also provide computational tools for using this information in and easy and accessible way. Our data will will also link directly to the main genomics and proteomics databases and we will make all of this information easily accessible for the biomedical research community at our AgBase website.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Resource-Related Research Projects (R24)
Project #
5R24GM079326-05
Application #
8333415
Study Section
Special Emphasis Panel (ZRG1-GGG-J (10))
Program Officer
Reddy, Michael K
Project Start
2008-07-01
Project End
2014-06-30
Budget Start
2013-07-01
Budget End
2014-06-30
Support Year
5
Fiscal Year
2013
Total Cost
$292,395
Indirect Cost
$99,395
Name
University of Arizona
Department
Veterinary Sciences
Type
Schools of Earth Sciences/Natur
DUNS #
806345617
City
Tucson
State
AZ
Country
United States
Zip Code
85721
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Sanders, William S; Johnston, C Ian; Bridges, Susan M et al. (2011) Prediction of cell penetrating peptides by support vector machines. PLoS Comput Biol 7:e1002101
Burt, David W; Carre, Wilfrid; Fell, Mark et al. (2009) The Chicken Gene Nomenclature Committee report. BMC Genomics 10 Suppl 2:S5