CoffeeDNA [Coffee Genomics Database]

CoffeeDNA is a query based user-friendly web-interface developed utilising server side scripting language [PHP] and html, driven by MySQL and PostGre Sql databases. CoffeeDNA is designed to be powerful, query based, interactive and user friendly.

CoffeeDNA is conceptually an effort for a graphical display of large amount of information pertaining to coffee genomics generated from Laboratory of Genetics, University of Trieste, Italy. The database also serves as a web portal for sequence analysis using in-house/web resources

Following are the characteristic features of CoffeeDNA,

The importance:
Coffee genomics data gains tremendous importance due to its commercial value.

User friendliness

• ‘CoffeeDNA’ is unique in terms of user-friendliness through efficient networking
• Online loading speed
• ‘CoffeeDNA’ is ‘feather light’, highly optimised even for slow modem based net connections

The Data

• Unique coffee germplasm database, with taxonomic information
• Polymorphic markers such as Microsatellites, ESTs, Retro/transposons
• More than 2697 ESTs with their putative function
• Gene Profiling based on EST analysis

Interactiveness and tools

• C-G Browser:  Coffee Genome Browser lists the sequence entries, while accessing detailed sequences
• Blast: The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences.
• Sequence submission Tool
• SeqMat: sequence similarity search tool
• Interactive search for all markers and gene function
• Download DB tool

CoffeeDNA has also aquired data from other labs.