20.109(S20):Module 2
Contents
Module 2
Lecturers: Ernest Fraenkel and Noreen Lyell
Instructors: Noreen Lyell and Leslie McClain, and Becky Meyer
Research assistant: Anne Shen
TAs: Kevin Chung and Joe Kreitz
Lab manager: Hsinhwa Lee
Overview
In Module 2 you will use two RNA-seq data sets to assess the effect of drug treatment on mammalian cells. RNA-seq is used to measure the transcriptome of a population of cells. By identifying which genes are active in response to a treatment, insights can be gathered regarding the cellular response. Specifically, the drug treatment you will use in your experiment is etoposide. Etoposide An additional goal of Module 2 is for you to synthesize data from different experiments into a single story. More often that not, researchers reach conclusions using results gathered from more than one experimental approach. Multiple layers of support can bolster a conclusion as they eliminate biases that may exist in a particular method of analysis. Furthermore, for complex questions it may be necessary to include data from several approaches to provide a sufficient conclusion.
Lab links: day by day
M2D1: Prepare cells for RNA purification and practice RNA-seq data analysis methods
M2D2: Treat cells with etoposide and analyze RNA-seq data
M2D3: Purify RNA from etoposide-treated cells and generate cDNA
M2D4: Journal club I presentations
M2D5: Journal club II presentations
M2D6: Analyze RNA-seq data and select gene targets for quantitative PCR experiment
M2D7: Perform qPCR experiment and continue RNA-seq data analysis
M2D8: Examine qPCR results and complete data analysis
Assignments
Journal club presentation
Research article
