Henckel, Kolja: Development of a software infrastructure to mine GeneChip expression data and to combine datasets from different Medicago truncatula expression profiling [...]. 2010
Inhalt
- Introduction
- Background
- cDNA analysis
- cDNA library creation & EST generation
- Expression analysis using pyrosequencing
- Computer aided analysis of sequence datasets (ESTs)
- cDNA expression analysis
- Microarray gene expression analysis
- Oligonucleotide microarrays
- Affymetrix GeneChip1® microarrays
- Methods of microarray gene expression analysis
- Standards for microarray expression datasets
- Data warehousing
- Existing systems
- Computer applications for the analysis of EST datasets
- Microarray analysis software
- Data warehouses
- Combination of different gene expression analysis methods
- System Design
- Extension of EMMA2 to store and analyze Affymetrix GeneChip1® expression datasets
- TRUNCATULIX - a data warehouse for the legume community
- MediPlEx - a tool to combine in silico & experimental gene expression values of the model legume Medicago truncatula
- Implementation
- Extension of EMMA2 to store and analyze Affymetrix GeneChip1® expression datasets.
- TRUNCATULIX
- MediPlEx
- Results
- Summary, discussion and outlook
- API documentation