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Computational Approaches to Phenotyping

High-Throughput Phenomics

Section of Genetic Medicine, Department of Medicine, University of Chicago, Chicago, Illinois

Correspondence and requests for reprints should be addressed to Yves A. Lussier, M.D., Section of Genetic Medicine, Department of Medicine, University of Chicago, 5801 South Ellis Avenue, Chicago, IL 60637. E-mail: lussier{at}uchicago.edu

ABSTRACT

The recent completion of the Human Genome Project has made possible a high-throughput "systems approach" for accelerating the elucidation of molecular underpinnings of human diseases, and subsequent derivation of molecular-based strategies to more effectively prevent, diagnose, and treat these diseases. Although altered phenotypes are among the most reliable manifestations of altered gene functions, research using systematic analysis of phenotype relationships to study human biology is still in its infancy. This article focuses on the emerging field of high-throughput phenotyping (HTP) phenomics research, which aims to capitalize on novel high-throughput computation and informatics technology developments to derive genomewide molecular networks of genotype–phenotype associations, or "phenomic associations." The HTP phenomics research field faces the challenge of technological research and development to generate novel tools in computation and informatics that will allow researchers to amass, access, integrate, organize, and manage phenotypic databases across species and enable genomewide analysis to associate phenotypic information with genomic data at different scales of biology. Key state-of-the-art technological advancements critical for HTP phenomics research are covered in this review. In particular, we highlight the power of computational approaches to conduct large-scale phenomics studies.

Key Words: computational genomics • gene–disease associations • phenomics • phenotype

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