#Statistical Analysis of High-Throughput Genomic and Transcriptomic Data Fall/Herbst-semester 2016

Lectures

Mondays 9.00-9.45, 10.00-10.45 (approx) Y23-G-04

Exercises

Monday 11.00-11.45 Y11-J-05

Lecturers

Dr. Hubert Rehrauer, Group Leader of Genome Informatics at FGCZ

Prof. Dr. Mark Robinson, Assistant Professor of Statistical Genomics, IMLS, UZH

Dr. Charlotte Soneson, Postdoctoral Fellow, IMLS, UZH

Schedule

Date	Lecturer	Topic	JC1	JC2
19.09.2016	Mark; Hubert	admin, mol. biology basics, R markdown
26.09.2016	Hubert	exploratory data analysis
03.10.2016	Mark; Hubert	interactive technology session
10.10.2016	Hubert	NGS intro; mapping
17.10.2016	Charlotte	hands-on RNA-seq session
24.10.2016	Mark	limma 1
31.10.2016	Mark	limma 2	Topological Data Analysis Generates High-Resolution, Genome-wide Maps of Human Recombination {CS}	x
07.11.2016	Hubert	RNA-seq quantification	Reliable detection of subclonal single-nucleotide variants in tumour cell populations {CB,L-WY}	A network-based method to evaluate quality of reproducibility of differential expression in cancer genomics studies {TS, SS}
14.11.2016	Mark	edgeR+friends 1	Impact of statistical models on the prediction of type 2 diabetes using non-targeted metabolomics profiling {FB,SM,CP}	[Capturing Heterogeneity in Gene Expression Studies by Surrogate Variable Analysis] (http://journals.plos.org/plosgenetics/article/asset?id=10.1371/journal.pgen.0030161.PDF) {HW, PR}
21.11.2016	Mark	edgeR+friends 2	Adjusting batch effects in microarray expression data using empirical Bayes methods {KH, SS}	A statistical approach for identifying differential distributions in single-cell RNA-seq experiments {VS, FH}
28.11.2016	Hubert	classification	A Method for Checking Genomic Integrity in Cultured Cell Lines from SNP Genotyping Data {EP, PCC}	Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size {AD, KL, XL}
5.12.2016	Mark	epigenomics, DNA methylation	Empirical Bayes Analysis of a Microarray Experiment {GA, IA}	Redefining CpG islands using hidden Markov models {FL, JK}
12.12.2016	Mark	ChIP data, gene set analysis	Circular binary segmentation for the analysis of array-based DNA copy number data {KR, MP}	Data-driven hypothesis weighting increases detection power in genome-scale multiple testing {SRH, NH, and LPF}
19.12.2016	Mark	single-cell	The statistical properties of gene-set analysis {AS, FE, MB}	x

Useful Links

Simply Statistics blog
Getting Genetics Done blog

Course material

You can check out the entire set of course materials with the following command:

git clone https://github.com/sta426hs2016/material.git