The Yuh's Lab

We study Molecular and Genome Medicine

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• Introduction (Yuh and Chuang), introduction to systems biology and why we need to study it (Yuh)
• Model organisms for systems biology (Yuh)
• Systematic approaches for transcription regulation (Yuh)
• Experimental Approaches for Quantitative Measurements: Genomics (Chuang)
• Experimental Approaches for Quantitative Measurements: Transcription regulation, protein-DNA interaction, protein-protein interaction (Yuh)
• I nformation in Bio-databases (Chuang)
• Bioinformatic tools in Systems Biology (Yuh)
• Comparative genomics in Systems Biology (Yuh)
• Regulatory Hardwiring: a brief overview of the genomic control apparatus and its causal role in development and evolution (Yuh)
• Inside the cis -regulatory module: control logic, and how regulatory environment is transduced into spatial patterns of gene expression (Yuh)
• Regulation of direct cell-type specification in early development (Yuh)
• The secret of the bilaterians: abstract regulatory design in building adult body plans (Yuh)
• Building the Endomesoderm Gene Regulation Network in sea urchin by BioTapestry Interactive Network Viewer(Yuh)
• Comparative analysis in System Biology, FamilyRelationsII and other computational tools for analyze the conserved non-coding region (Yuh)
• Future applications of system biology (Yuh)

• Introduce to systems biology and why we need to study it.
• Model organism for system biology.
• Genomic approaches to transcription regulation.
• Tools forhigh-throughput quantitative measurements of biological information were developed (e.g., DNA sequencer, DNA arrays, proteomics, etc.)
• The use of new experimental technologies to detect DNA-protein or. protein-protein interaction
• Computational algorithms in predicting motifs, modules and network.
• Comparisons between the genomes of multiple species in order to identify conserved sequences.
• Building the Endomesoderm Gene Regulation Network in sea urchin by BioTapestry.
• Looking for conserved genomic motif using FamilyRelationshipII.

 

• Microinjection of perturbants into embryo
• Collect embryos at different stages
• Extract mRNA and theory of Q-PCR, and doing Q-PCR
• Analysis of the data.
• Practice BioTapestry to build the network
• Extract the genomic sequence from genome browser
• Practice FamilyRelations to find the conserved modules
• Practice motif search software to find the regulatory motifs