HOW TO SEARCH and QUERY AnaccariiBase

AnaccariiBase is the Adriatic Sturgeon (Acipense naccarii) transcriptome databases.
The database entries correspond to putative Adriatic Sturgeon trascripts, chracterised by bioinformatic analyses.
Individual transcripts are associated to different kinds of sequence and annotation by similarity information.
See a sample AnaccariiBase entry
http://compgen.bio.unipd.it/anaccariibase/contig/CDNA3-4_11_2010_0_s54720/

HOW TO SEARCH AnaccariiBase

The database is searchable from the search page using keywords on all entry fields.
The result of such a search is a table listing accession numbers and descriptions of matching entries, linked to contig pages.
Screenshots of search form, results table and linked entry:

HOW TO BROWSE AnaccariiBase for MASSIVE DATA RETRIEVAL

The database in browsable: by combining searches of specific keywords in given entry fields the user can retrieve information about all the matching entries, as table separated values (TSV) text files. The special keywors “HAS” can be used to retrieve all the entries with a non empty content of one or more specific fields.

Simple query:

using a given contig accession number
retrieving contig description and sequence information

CDNA3-4_11_2010_0_s54720	phosphatidylinositol 4-kinase alpha	AGCAGTGGTATCAACGCAGAG...

Advanced query:

Using “growth” as keywords on description field
using HAS on GO descriptions, to consider all the entries corresponding to contigs associated to GO terms
retrieving both sequence and annotation information

CDNA3-4_11_2010_0_rep_c5930	insulin-like growth factor 2 mrna-binding protein 2	TTTGAACGTAAAGTACCCCGGCTGACCTCGGGTACTGAGTGATGCACAC...
CDNA3-4_11_2010_1_rep_c1665	up-regulated during skeletal muscle growth protein 5	TTTTTTTGGGTTTCATGTTCTTTATTTTTTTCAACATTGATGACT...
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