Next Generation Sequencing (NGS) - Analysis of RNAseq and ChIPseq data

Lecturer:

Nico Posnien, UnivProf.Dr. Tim Beißbarth

Course typ:

Blockveranstaltung

Description:

The course is given by Tim Beißbarth, Stefan Bonn and Nico Posnien.

In this 3 day course we will give a general introduction to recent advances in sequencing technologies (next generation sequencing, NGS) and the respective fields of application. In hands-on training sessions the participants will be guided through typical analysis pipelines for differential gene expression, de novo assembly of transcriptomes and ChIP-seq datasets.

Tuesday 22.11. 2016- Topic: de novo Assembly
Room: Library (Bibliothek) of the Dpt. of Medical Statistics, Humboldtallee 32
9:15-10:00   Lecture: Introduction to NGS technologies and applications (Nico Posnien)
10:05-10:50   Lecture: Introduction to de-novo assembly (DNA, RNA) (Nico Posnien)
10:55:11:40    Lecture: Basics of graph theory (DeBruijn Graphs, etc) (Tim Beißbarth)
11:40-12:00   Discussions/Questions
12:00-13:30   Lunch
Room: Computer Pool of the Dpt. of Medical Statistics, Humboldtallee 32
13:30-16:30   Practical part: de-novo Transcriptome Assembly (Nico Posnien)

Wednesday 23.11.2016 - Topic: RNA-Seq
Room: Library (Bibliothek) of the Dpt. of Medical Statistics, Humboldtallee 32
9:15-10:00   Lecture: Mapping Algorithms (Stefan Bonn)
10:05-10:50   Lecture: Statistical analysis of RNA-seq data (Tim Beißbarth)
10:55-11:40   Lecture: Quality control, databases and tools for annotation of NGS data (Stefan Bonn)
11:40-12:00   Discussion/Questions
12:00-13:30   Lunch
Room: Computer Pool of the Dpt. of Medical Statistics, Humboldtallee 32
13:30-16:30   Practical part: RNA-seq Mapping and Counting (Tim Beißbarth)

Thursday 24.11.2016 - Topic: ChIP-Seq
Room: Library (Bibliothek) of the Dpt. of Medical Statistics, Humboldtallee 32
9:15-10:00   Lecture: Introduction to ChIP-seq (Nico Posnien)
10:05-10:50   Lecture: Peak-Detection and algorithms in ChIP-seq analysis (Stefan Bonn)
10:55-11:40   Lecture: Motif search (Tim Beißbarth/Edgar Wingender)
11:40-12:00   Discussion/Questions
12:00-13:30   Lunch
Room: Computer Pool of the Dpt. of Medical Statistics, Humboldtallee 32
13:30-16:30   Practical part: ChIP-Seq Analysis (Stefan Bonn)

Place:

unspecified

Semester:

WiSe 2017/18

Times:

Dates on Tuesday, 14.11.2017 - Thursday, 16.11.2017 09:15 - 23:59
First appointment: Tuesday, 14.11.2017 09:15 - 23:59

Course number:

340208

Participants:

Target group: GGNB doctoral students.

Pre-requisites:

Since we do not cover an introduction to Unix Shell and R, participants should know those basics.

Learning organisation:

Course location: Library and CIP Pool Room, Institut für Medizinische Statistik; Humboldtallee 32; 37073 Göttingen. The course will take place 14-16 November 2017.

Area classification:

Vorlesungsverzeichnis WiSe 2017/2018 > Forschungseinrichtungen > Göttinger Graduiertenschulen > Georg-August University School of Science (GAUSS) > Göttinger Graduiertenschule für Neurowissenschaften und molekulare Biowissenschaften (GGNB) > Methods Courses > Biophysics, Bioinformatics and Statistics

ECTS credit points:

1.5

Further information from Stud.IP about this course

Home institute: Göttinger Graduiertenzentrum für Neurowissenschaften, Biophysik und molekulare Biowissenschaften (GGNB)
Participating institute: Institut für Medizinische Statistik
Participants registered in Stud.IP: 2
Number of postings in Stud.IP forum: 2