Fall 2017 Schedule


Topics Reading Assignments
Week 1:
Tuesday
November 7 (TM)
Introduction to RNA sequencing (slides)
Data processing and quality control (Exercise)
Reuter et al., 2015 Assignment1
Thursday
November 9 (TM)
Aligning short reads Trapnell et al., 2009
Week 2:
Tuesday
November 14 (TM)
Differential gene expression analysis Trapnell et al., 2013
Thursday
November 16 (TM)
Data visualization Conesa et al., 2016
Week 3:
Tuesday
November 21 (Break)
Break
Thursday
November 23 (Break)
Break
Week 4:
Tuesday
November 28 (EN)
RNA-seq Design
Intro to HTSeq Tutorial
Anders et al., 2010 Assignment 2
Thursday
November 30 (EN)
Differential Expression with DESeq2
Intro to R Tutorial
Intro to DESeq2 Tutorial
Eisen et al., 1998
Week 5:
Tuesday
December 5 (EN)
Intro to clustering
Reproducible research
Thursday
December 7 (EN)
In-class Exam ( example)