est2genome

est2genome aligns expressed sequence tag (EST) sequences to genomic DNA to map cDNA-derived sequences and support gene structure and expression analysis.

Key Features:

• EMBOSS integration: Interacts with the EMBOSS suite and over 200 other applications and can interoperate with third-party packages.
• Alignment algorithms: Implements algorithms to map short cDNA-derived ESTs to genomic loci for gene discovery and annotation.
• C implementation: Implemented using the C programming libraries provided by EMBOSS.
• ACD configuration: Uses Application Configuration Description (ACD) files for configuration and to enable modification and extension within the EMBOSS framework.

Scientific Applications:

• Genomic research: Aligns ESTs to genomic DNA to identify gene structures and characterize expression patterns.
• Molecular biology studies: Supports transcriptome analysis, comparative genomics, and functional genomics by mapping cDNA sequences to genomes.

Methodology:

Maps short cDNA (EST) sequences to genomic DNA using alignment algorithms; the program is implemented in C and configured via ACD files.