DocumentCode :
3394123
Title :
A system for recognition of biological patterns in toxins using computational intelligence
Author :
De Carvalho, Bernardo Penna Resende ; Mendes, Thais Melo ; de Souza Ribeiro, Ricardo ; Fortuna, Ricardo ; Veneroso, José Marcos ; de Alvarenga Mudado, Maurício
fYear :
2009
fDate :
March 30 2009-April 2 2009
Firstpage :
121
Lastpage :
127
Abstract :
This work presents an innovative way to find biological patterns in toxins in order to classify them according to their biological functions. Basing on relevant biological information (database) it was developed a system that uses computational intelligence to discover novel patterns within the primary and secondary structures of a set of toxins. The discovered patterns make it possible to differentiate these toxins by their function: binding to specific channels for sodium, calcium or potassium ions. The classification rules are built using a given toxin database which is pre-processed according to the existence of signal peptide or propeptide in the primary sequence, together with the predicted secondary structures and its physical and chemical characteristics and water affinity information. The best obtained patterns are combined together in order to generate a final rule. All the experiments were performed using 802 toxin primary sequences labeled as channel functions obtained from two public databases, ATDB and Tox-Prot. After using the system to solve three different binary classification problems, each one for a specific ion channel, a committee is used to obtain the final classification label for each toxin. The committee got a classification accuracy of 80%, with correctness of 97%, 67% and 55% respectively to sodium, potassium and calcium channels.
Keywords :
biology computing; biomembrane transport; pattern recognition; ATDB database; Tox-Prot database; binary classification; biological functions; biological patterns recognition; computational intelligence; ion channels; toxins; water affinity information; Amino acids; Calcium; Chemicals; Computational intelligence; Databases; Organisms; Pattern recognition; Peptides; Proteins; Sequences;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Computational Intelligence in Bioinformatics and Computational Biology, 2009. CIBCB '09. IEEE Symposium on
Conference_Location :
Nashville, TN
Print_ISBN :
978-1-4244-2756-7
Type :
conf
DOI :
10.1109/CIBCB.2009.4925717
Filename :
4925717
Link To Document :
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