I direct the microarray group at the Stowers Institute. Current projects of interest:
MEEBO Chip - development of a Mouse Exonic Evidence Based Open-source long (70-mer) oligo set to represent the mouse genome, in collaboration with Ash Alizadeh and Max Diehn.Experimental Comparative Genomics Sea Urchin DNA microarray - a small project to scan the Sea Urchin genome (what's known of it to date) and design probes based on homology to highly characterized genes from other organisms.
S. pombe genome set (9000 70-mer probes for interrogating fission yeast).
Genomic Tiling array for S. cerevisiae. Consists of 70-mers designed for 250 base resolution coverage of intergenic regions of yeast. When used in conjunction with Operon's expression set one can construct a tiling array for most of the genome, good for ChIP chip and CGH.
Iterative Gene Group analysis - Understand genomic data by iterating through groups of genes to see how they are dispersed in a data set. Genes are put into groups for reasons. When the data highlights certain groups as showing activity in the data, those reasons are handed back to you.
Using systematic gene synthesis to construct libraries.
qPCR primer sets for model organism genomes:
- qPCR primer sets for all yeast genes: gff_file for browser tracks. These primer sets were derived with uPrimer, and are unverified. But it's a start. As soon as I verify some, I'll post the design file. Meanwhile, if you want them, mail me.
- qPCR primer sets for all c. elegans genes. Designs finished but unverified. If you want them, mail me.
Common Microarray Protocols