Three SDCSB research cores support the “Maps to Models” approach with sophisticated experimental and bioinformatic pipelines.
The Genomics and Genome Engineering Core provides technologies to measure the genome, epigenome and transcriptome (including DNA-DNA and protein-DNA interactions) and to screen the effects of systematic genetic and chemical perturbations. Specific technologies include Illumina HiSeq and PacBio next-generation DNA sequencing, Illumina genotyping and methylation arrays, siRNA, ORF and CRISPR libraries and screening robotics, and associated expertise and data processing pipelines.
The Microfluidics and Synthetic Biology Core develops technologies and protocols for live cell imaging in dynamic environments and for the design of synthetic genetic circuits. The core assists users in designing and quantitating fluorescent reporters, the design and implementation of microfluidic chips, automated live-cell imaging and computer-assisted image processing. Synthetic circuit design includes assistance with important decisions including selection of promoters and reporters.
The Network Assembly and Mathematical Modeling Core develops the computational tools underlying the network mapping and predictive modeling strategy of the center. It implements a multi-stage pipeline leading from omics data through the assembly of molecular network maps and data-driven gene ontologies to network analysis and quantitative kinetic modeling. Computing hardware leverages the UCSD Integrated Digital Infrastructure initiative subsidized by campus.
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