This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. With the completion of genome sequencing projects, analysis of biological data in silico has assumed a central role in biomedical research. Mining of comprehensive sequence databases is possible through the use of several sophisticated web-based services. In addition, numerous online tools are available to assist in the process of sequence alignment, primer selection and protein prediction. The toolbox available to the individual investigator for analysis of existing databases is relatively extensive, and we have therefore chosen to focus one component ofthe MMCRI bioinformatics core on the performance and interpretation of transcriptome comparisons through microarray analysis using the Affymetrix gene chip system. As a related component, we provide resources for automated (robotic) nucleic acid sample purification and software tools for genechip data analysis. In addition, quantitative PCR has emerged as the method of choice for early validation of gene regulation detected by microarray analysis. As a third component, this core provides QPCR (using either user-supplied oligonucleotides or pre-validated oligonucleotides). Finally, to complement the efficient production of transgenic and gene targeted mouse strains already offered by the transgenic core, the bioinformatics core maintains a repository of validated targeting construct components, and will further develop the expertise to plan complex gene targeting strategies.
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