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Bioinformatics Advance Access published online on August 7, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl425
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© 2006 The Author(s)
Received June 8, 2006
Revised July 31, 2006
Accepted July 31, 2006

Applications note

UniGene Tabulator: a full parser for the UniGene format

Luca Lenzi 1, Flavia Frabetti 1, Federica Facchin 1, Raffaella Casadei 1, Lorenza Vitale 1, Silvia Canaider 1, Paolo Carinci 1, Maria Zannotti 1, and Pierluigi Strippoli 1 *

1 Department of Histology, Embryology and Applied Biology, University of Bologna - 40126-Bologna, Italy

* To whom correspondence should be addressed.
Pierluigi Strippoli, E-mail: pierluigi.strippoli{at}unibo.it


  Abstract

Summary: UniGene Tabulator 1.0 provides a solution for full parsing of UniGene flat file format; it implements a structured graphical representation of each data field present in UniGene following import into a common database managing system usable in a personal computer. This database includes tables related for sequence, protein similarity, sequence-tagged site (STS) and transcript map interval (TXMAP) data, plus a summary table where each record represents a UniGene cluster.

UniGene Tabulator enables full local management of UniGene data, allowing parsing, querying, indexing, retrieving, exporting and analysis of UniGene data in a relational database form, usable on Macintosh (OS X 10.3.9 or later) and Windows (2000, with service pack 4, XP, with service pack 2, or later) operating systems-based computers.

Availability: the current release, including both the FileMaker runtime applications, are freely available at http://apollo11.isto.unibo.it/software/.

Supplementary information: we also distribute a precalculated implementation for current Homo sapiens (build #190, March 2006) and Danio rerio (zebrafish, build #90, March 2006) UniGene data.

Associate Editor: Alfonso Valencia
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