BiocenterInnsbruck Medical University
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BIOINFORMATICS

Wahlmodul 2: Bioinformatik (7,5 ECTS-AP, 5 SSt) [VO 2 104540] [UE 3 104541]

LECTURER

Francesca Finotello, Hubert Hackl, Dietmar Rieder

LOCATION

Rechnerraum 14 (Rechnerraum 19)

UNITS

M 30 May [09:00-12:00] [13:00-16:00]Lecturerr14Hubert Hackl
T 31 June [09:00-12:00] [13:00-16:00]Lecturerr14Hubert Hackl
W 01 June [09:00-12:00] [13:00-16:00]Lecturerr14Francesca Finotello
T 02 June [09:00-12:00]Lecturerr14Francesca Finotello
T 02 June [13:00-16:00]Seminar preparationrr14independent
F 03 June [09:00-12:00]Lecturerr14Francesca Finotello
F 03 June [13:00-15:00]Seminar/Presentationsrr19FF, HH, DR
T 07 June [09:00-12:00]Computer Labrr14Hubert Hackl
T 07 June [13:00-16:00]Computer Labrr14Dietmar Rieder
W 08 June [09:00-12:00] [13:00-16:00]Computer Labrr14Dietmar Rieder
T 09 June [09:00-12:00] [13:00-16:00]Computer Labrr14Francesca Finotello
F 10 June [09:00-12:00]Computer Labrr19Dietmar Rieder
F 10 June [13:00-15:00]Written Examrr19Hubert Hackl

NOTES

I Transcriptional regulation, Sequence analyses, Gene expression analyses
[pdf]
II Functional analyses (pathways, enrichment, networks), Single cell analyses (scRNAseq)[zip]
Exercises - Computer LabLink

SEMINAR TOPICS

Neoantigen prediction
Deep learning for TCR prediction
Immunogenicity testing with multimers
Single-cell RNA-seq using microfluidics
Transcriptomics based signaling pathway analysis
Genome architecture mapping
Modulator inference by network dynamics (MINDy)
Phylogenetic trees (REALPHY)
Single cell RNAseq in Pancreas
Sequenza: allele specific copy number from tumor sequencing
Network motifs
ChIP-seq in myogenesis
Time series network interference (TSNI)
3D genome organization
RNA methylation
Transcriptional brain atlas
Tumor immune microenvironment in ccRCC

BOOKS


Bioinformatics. Sequence and Genome Analysis.
D.W. Mount · CSHL Press. 2004

Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins
Baxevanis AD, Ouellette BF (eds) · John Wiley & Sons, New York, 1998

Biological sequence analysis: Probabilistic models of proteins and nucleic acids
Durbin, Eddy, Krogh, Mitchison · Cambridge University Press. 2000

Computational Methods in Molecular Biology
Salzberg, Searls, Kasif · Elsevier. 1998

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