Rasche, Axel
[VerfasserIn]
;
rasche@molgen.mpg.de
[MitwirkendeR];
Martin Vingron
[MitwirkendeR];
Winston Hide
[MitwirkendeR];
Hans Lehrach
[MitwirkendeR]
Information theoretical prediction of alternative splicing with application to type-2 Diabetes Mellitus ; Informationstheoretische Vorhersage von alternativem Spleissen mit Anwendung auf den Typ-2-Diabetes mellitus
Titel:
Information theoretical prediction of alternative splicing with application to type-2 Diabetes Mellitus ; Informationstheoretische Vorhersage von alternativem Spleissen mit Anwendung auf den Typ-2-Diabetes mellitus
Beteiligte:
Rasche, Axel
[VerfasserIn]
Erschienen:
Freie Universität Berlin: Refubium (FU Berlin), 2010
Anmerkungen:
Diese Datenquelle enthält auch Bestandsnachweise, die nicht zu einem Volltext führen.
Beschreibung:
1 Introduction 1.1 Alternative splicing 1.2 Experimental techniques 1.3 Concepts of information theory as a measure of exon diversity 1.4 Type-2 diabetes mellitus 1.5 Aims of the thesis 2 Aspects of Alternative Splicing 2.1 Biological background 2.1.1 Alternative splicing patterns 2.1.2 Increase of the proteomic diversity 2.1.3 Function and biological relevance 2.1.4 Splicing errors 2.1.5 Alternative splicing in disease 2.1.6 Therapy of diseases caused by alternative splicing 2.2 Global analysis with high-throughput technologies 2.2.1 Alternative splicing databases 2.2.2 Microarrays 2.2.3 RNA-Seq 3 Computational Analysis of Affymetrix Arrays 3.1 Design of the GeneChip array 3.1.1 The 3’ gene expression array 3.1.2 The exon array 3.1.3 Alternative probe-gene assignments 3.2 Differential expression (DE) with 3’ gene expression arrays 3.2.1 Experimental setup 3.2.2 Quality control of raw data 3.2.3 Determine test cases 3.2.4 Preprocessing 3.2.5 Evaluation of the data and differential expression filter 3.2.6 Gene set evaluation: Over- representation and group testing 3.3 Alternative splicing (AS) and differential expression with exon arrays 3.3.1 Experimental setup and determination of test cases 3.3.2 Preprocessing 3.3.3 Differential expression evaluation and filter 3.3.4 Alternative splicing evaluation and filter 3.4 Use of the pipelines for different research projects 4 Statistical Analysis of Alternative Splicing 4.1 Preliminaries 4.2 ARH 4.2.1 Algorithm 4.2.2 Characteristics of ARH 4.3 Description of different methods 4.3.1 Splicing index (SI) 4.3.2 SPLICE 4.3.3 Pattern-based correlation (PAC) 4.3.4 Analysis of splice variation (ANOSVA) 4.3.5 Microarray detection of alternative splicing (MiDAS) 4.3.6 Microarray analysis of differential splicing (MADS) 4.3.7 Finding isoforms using robust multichip analysis (FIRMA) 4.3.8 Correlation 4.3.9 Practical implementation of the methods 4.4 Evaluation of alternative splicing prediction methods 4.4.1 Probe assignment and selection of splicing events from the AEdb 4.4.2 ...