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Journal Club

 Statistical Bioinformatics - JOURNAL CLUB [2018]

          We meet weekly on Tuesdays, 9:30 in the institute's seminar room

Journal Club archive: [2017] [2016] [2015] [2014] [2013] [2012]


Date Lecturer Topic

09.01.    

Michael Huttner

Bitcoin: A Peer-to-Peer Electronic Cash System

16.01.         

Franz Süss

(OTH Regensburg)

Die Auswirkung von Stress auf die Biomechanik des menschlichen Körpers

23.01.

Franziska Görtler

Loss-function learning for digital tissue deconvolution

30.01.

Simon Gross 

(OTH Regensburg)    

Influence of Fatigue on Muscle Recruitment Pattern

06.02.

Rudolf Schill

Mutual Hazard Networks

13.02.

Microarray Course 

~ ~ ~ cancelled ~ ~ ~

20.02.

Gunther Glehr 

Identification of a miRNA based model to detect prognostic subgroups in patients with DLBCL [talk] [quality report]

27.02.

e:Med

 ~ ~ ~ consortium meeting ~ ~ ~

06.03.

Victoria-Marie Rothe

MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads [paper] [talk]

13.03.

Julia Roigk

Defect Probability in InkJet Printing

20.03.

Maximilian Aurbach

(OTH Regensburg)

EMG basierte Diagnose - Algorithmen für die Detektion von musculoskeletalen Schultererkrankungen

27.03.

Alexandra Holler     

DNA Methylation Patterns in the BALB-neuT Breast Cancer Mouse Model [Master thesis, final report]

03.04.

Easter Break

~ ~ ~ cancelled ~ ~ ~

10.04.

Christoph Kopp

Presentation - Bachelor Thesis

17.04.

Prof. Dr. Bernd Ludwig

Maschinelles Lernen im Kontext von Verhaltens- und Umgebungs-Kontext

24.04.

Stefan Hansch

[Progress Report]

Lyra - Lymmml - (Sysprog)

01.05.

public holiday

 ~ ~ ~ cancelled ~ ~ ~

08.05.

Thorsten Rehberg

15.05.

Christian Kohler

Multi-Container Orchestration with Kubernetes

22.05.

Pentecost

~ ~ ~ cancelled ~ ~ ~

29.05.

Claudio Lottaz

Genome editing with Cas9

The wonderful world of CRISPR by Peter Shepherd

05.06.

Michael Altenbuchinger

Helena Zacharias

Joint Probability Classification /

Mixed Graphical Models (MGMs)

12.06.

Paul Heinrich

Determination of celltype-specific gene expression form bulk data

19.06.

Martin Fahrenberger

Adventures in Spatial Transcriptomics

26.06.

Marian Schön

Optimizing DTD using FISTA

03.07.

e:Med

~ ~ ~ consortium meeting ~ ~ ~

10.07.

Rainer Spang

Lecture on Writing: "Hedging"

17.07.

Michael Huttner

24.07.

Franziska Görtler

31.07.

Rudolf Schill

01.08. - 07.09.

summer break

~ ~ ~ cancelled ~ ~ ~

11.09.

Microarray Course

~ ~ ~ cancelled ~ ~ ~

18.09.

Stefan Hansch

25.09.

Thorsten Rehberg

02.10.

Christian Kohler

09.10

Claudio Lottaz

16.10.

Michael Altenbuchinger

23.10.

Paul Heinrich

30.10.

Martin Fahrenberger

06.11.

Marian Schön

13.11.

Rainer

20.11.

Gunther Glehr

27.11.

TBA



Genomische Datenanalyse

Information and material for the microarray workshop

Genomische Datenanalyse

 

  Lecture Practical
Room check information in VVZ #57046 check information in VVZ #57046
Tutor Rainer Spang

 

Description

The workshop provides an introduction to the analysis of genomic data. The analysis of microarray data sets is practiced using the statistical software R and Bioconductor.

 

Schedule

Lecture  Mo-Fr  10:00h - 12:00h (st)
Practical  Mo-Fr  13:00h - 18:00h (st)

 

Outlook

Day Lecture Practical
1 Introduction into Microarray Analysis A gentle Introduction into R
2 Microarray Normalization Quality Control and Normalization
3 Screening Differential Geneexpressionanalysis
4 Clustering Clustering
5 Classification Classification

More informations and PDF files:

Programming with R

Literature


RNA Sequencing

Loss-fInformation and material for the RNA-Seq workshop

RNA-Seq Workshop

 

  Lecture Practical
Room Seminar room
Biopark I - 2.OG
check information in VVZ #57045
Tutor N.N.

 

Description

This course provides an introduction into the analysis of next-generation seqencing data for transcriptomic studies (RNA-Seq). It covers alignment algorithms, methods for finding differentially expressed genes and transcripts and retrieving annotation data from public sources. During the exercises the participants work with real sequence data and applied open source command line tools as well as work within the statistical software environment R and Bioconductor.

Please read the introduction before the course:

http://www.stat.cmu.edu/~larry/all-of-statistics/=R/Rintro.pdf

If you are a RIGeL graduate student you receive 1,5 Credit points for this course. You can find all information on the Homepage of RIGeL.

 

Schedule

Lecture  Mo-Fr  09:30h - 11:30h (st)
Practical  Mo-Fr  13:00h - 18:00h (st)

 

Outlook

Day Lecture Practical
1 Introduction into second-generation sequencing and RNA-seq First steps in sequence data analysis
2 Sequence alignment theory Sequence alignment, play with aligned data
3 Assessing differential expression DESeq2 tutorial (differential expression)
4 Genome features and annotation DEXSeq tutorial (alternative splicing) and retrieving sequence and annotation with Bioconductor
5 Detecting mutations with RNA-seq Detecting and annotating mutations with RNA-seq tutorial

  1. Department of Medicine
  2. Institute for Funtional Genomics

Teaching Statistical Bioinformatics

 

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