Customized molecular phenotyping by quantitative gene expression and pattern recognition analysis.
Description of the molecular phenotypes of pathobiological processes in vivo is a pressing need in genomic biology. We have implemented a high-throughput real-time PCR strategy to establish quantitative expression profiles of a customized set of target genes. It enables rapid, reproducible data acquisition from limited quantities of RNA, permitting serial sampling of mouse blood during disease progression. We developed an easy to use statistical algorithm--Global Pattern Recognition--to readily identify genes whose expression has changed significantly from healthy baseline profiles. This approach provides unique molecular signatures for rheumatoid arthritis, systemic lupus erythematosus, and graft versus host disease, and can also be applied to defining the molecular phenotype of a variety of other normal and pathological processes.
Akilesh
Shreeram
S
The Jackson Laboratory, Bar Harbor, Maine 04609, USA.
Shaffer
Daniel J
DJ
Roopenian
Derry
D
D000465:Algorithms; D000818:Animals; D001172:Arthritis, Rheumatoid / Q000235:genetics; D019295:Computational Biology / Q000379:methods* / Q000706:statistics & numerical data; D004195:Disease Models, Animal; D018450:Disease Progression; D005260:Female; D020869:Gene Expression Profiling / Q000379:methods* / Q000706:statistics & numerical data; D005786:Gene Expression Regulation / Q000235:genetics*; D020022:Genetic Predisposition to Disease / Q000235:genetics; D006086:Graft vs Host Disease / Q000235:genetics; D007118:Immunoassay / Q000379:methods / Q000706:statistics & numerical data; D008180:Lupus Erythematosus, Systemic / Q000235:genetics; D008297:Male; D051379:Mice; D008807:Mice, Inbred BALB C; D008810:Mice, Inbred C57BL; D008957:Models, Genetic; D018448:Models, Immunological; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods* / Q000706:statistics & numerical data; D010641:Phenotype; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity