Journal of Proteomics & Bioinformatics
Open Access
ISSN: 0974-276X
ISSN: 0974-276X
Martti T Tammi
Posters: J Proteomics Bioinform
A variety of specialist databases have been developed to facilitate the study of allergens. However, these databases either contain different subsets of allergen data or are deficient in tools for assessing potential allergenicity of proteins. Here, we describe Allergen Atlas, a comprehensive repository of experimentally validated allergen sequences collected from in-house laboratory, online data submission, literature reports and all existing general-purpose and specialist databases. Each entry was manually verified, classified and hyperlinked to major databases including Swiss-Prot, Protein Data Bank (PDB), Gene Ontology (GO), Pfam and PubMed. The database is integrated with analysis tools that include: (i) keyword search, (ii) BLAST, (iii) positionspecific iterative BLAST (PSI-BLAST), (iv) FAO/WHO criteria search, (v) graphical representation of allergen information network and (vi) online data submission. The latest version contains information of 1593 allergen sequences (496 IUIS allergens, 978 experimentally verified allergens and 119 new sequences), 56 IgE epitope sequences, 679 links to PDB structures and 155 links to Pfam domains.
Martti T Tammi is a research associate in Karolinska Institutet, Department of Microbiology, Tumor and Cell Biology, Stockholm, Sweden .He did research work in department of Biological Sciences, National University of Singapore, Singapore and department of Biochemistry, National University of Singapore, Singapore.His focused area is mainly Bioinformatics methods development: Large-scale genome sequencing methods, sequence alignment, clustering and database search algorithms, pattern recognition, and comparative genomics.