Forschungs- & Entwicklungsinformationsdienst der Gemeinschaft - CORDIS

Development of a specific database dedicated to AFLP automated data

The incredible explosion of knowledge production in Biology during the two last decades has created a critical need for bioinformatics instruments able to manage data and facilitate their retrieval and analysis. Hundreds of biological databases have been produced and integration of biological data from these different resources is extremely necessary when we want to focus our efforts towards the study of a particular layer of biological knowledge. Molecular sequences and biological data on gene and their functional products are publicly available from a wide variety of databases.

A part from primary and genomic databases (Embl, Swissprot, Ensembl, etc.), in which these kind of information are dispersed among all the others, many specialized databases have been developed collecting data from external heterogeneous data resources, including literature references, and in some cases also adding information coming from in-silico and/or experimental studies of gene and/or protein functional characterization. As far as those databases dedicated to sequences, no information are available on databases dedicated to AFLP automated data, in collaboration with a bioinformatics society, we have developed a specific database named “AFLP Manager” able to recognize and download directly the ABI files generated from the GeneScan Collection software (PE Applied Biosystems) after the separation on ABI Prism 310 automated DNA sequencer.

The AFLP Manager after loading the ABI prism data is able to recognize each information on the sample (peaks, time of run, areas of peaks, etc.). This database was developed in a DBMS free in MSQL and it is able to collect, modify, compare data, make query and export a final data set in a binary matrix useful for statistical analyses. Actually the database is available on the web at the following URL:http://server.ispa.cnr.it/ITEM/AflpManager.

Reported by

National Research council of Italy
Via Amendola 122/O
70126 Bari
Italy
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