Bioconductor is a widely used open source and open development software project for the analysis and comprehension of data arising from high-throughput experimentation in genomics and molecular biology. This volume's coverage is broad and ranges across most of the key capabilities of the Bioconductor project, including

importation and preprocessing of high-throughput data from microarray, proteomic, and flow cytometry platforms

curation and delivery of biological metadata for use in statistical modeling and interpretation

statistical analysis of high-throughput data, including machine learning and visualization,

modeling and visualization of graphs and networks.

Inhalt
Preprocessing data from genomic experiments.- Preprocessing Overview.- Preprocessing High-density Oligonucleotide Arrays.- Quality Assessment of Affymetrix GeneChip Data.- Preprocessing Two-Color Spotted Arrays.- Cell-Based Assays.- SELDI-TOF Mass Spectrometry Protein Data.- Meta-data: biological annotation and visualization.- Meta-data Resources and Tools in Bioconductor.- Querying On-line Resources.- Interactive Outputs.- Visualizing Data.- Statistical analysis for genomic experiments.- Analysis Overview.- Distance Measures in DNA Microarray Data Analysis.- Cluster Analysis of Genomic Data.- Analysis of Differential Gene Expression Studies.- Multiple Testing Procedures: the multtest Package and Applications to Genomics.- Machine Learning Concepts and Tools for Statistical Genomics.- Ensemble Methods of Computational Inference.- Browser-based Affymetrix Analysis and Annotation.- Graphs and networks.- and Motivating Examples.- Graphs.- Bioconductor Software for Graphs.- Case Studies Using Graphs on Biological Data.- Case studies.- limma: Linear Models for Microarray Data.- Classification with Gene Expression Data.- From CEL Files to Annotated Lists of Interesting Genes.