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Introduction Week 1 Sept 29

Introduction Week 1
Sept 29

Introduction
Discussion of discussions: format

Science 2.0

Molecular 101

What is PCR?

Paper

ncb0908-1015.pdf

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Schedule of Topics

Week 1 - Intro
Week 2 - Gene Discovery (Amanda & Kristy)
Week 3 - Bioinformatics (Lisa & Mac)
Week 4 - Epigenetics (Jennifer & Amanda)
Week 5 - Next Generation Sequencing Technology (Bethany & Lisa)
Week 6 - Molecular Diagnostics (Jess & Carl) Community Ecology (Jess & Jennifer)
Week 7 - QRT-PCR (Angela & Carl)
Week 8 - Microarrays (Mac & Bethany)
Week 9 - Proteomics (John & Kristy)
Week-10 - Metabolomics (John & Angela)

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Technique Sampling
Molecular Discovery
[small scale] Differential Display, Suppression Subtraction Hybridization, Degenerative PCR
Applications: various, environmental effects, physiology, explanation of phenotype
Molecular Discovery
[large scale] Sequencing: Expressed Sequence Tags (ESTs), enriched microsat library, genomes
Applications: various, environmental, stock assessment, parentage, marker ID, phylogeny
Bioinformatics
gene discovery, BLAST, sequence assembly
Applications: in silico gene discovery / genetic markers, routine analysis of sequences,
Large Scale Expression Analysis
SAGE, 454, illumina, array
Applications: developmental changes, environmental effects, marker discovery, 16s rRNA diversity
QPCR
SYBR Green, Taqman
Applications: microbial abundance/diversity, disease diagnostic, plankton tow/ larval ID+ abundance, SNPS)
QRTPCR
SYBR Green, Taqman
Applications: developmental larval tracking, physiology, various, explanation of phenotype
Population Genetic Marker Analysis
SSR, SNPs
Applications: stock structure, parentage, reproductive success, distribution patterns, genetic diversity
Protein Analysis
[proteome] Commassi gel, 2-D electrophoresis, sequencing
Applications: kin recognition, physiology, environmental effects, phenotype explanation, microbial signatures
Protein Analysis
[targeted] Western analysis, yeast two hybrid protein-protein interaction
Applications: physiology, disease mechanisms, cellular processes, stress indicators,
Gene / Protein Expression
[tissue/cell localization] Histology, immunocytochemistry, in-situ
Applications: physiology, disease diagnostics, developmental differences

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