TY - JOUR
T1 - AllerML
T2 - Markup language for allergens
AU - Ivanciuc, Ovidiu
AU - Gendel, Steven M.
AU - Power, Trevor D.
AU - Schein, Catherine H.
AU - Braun, Werner
N1 - Funding Information:
This work was supported by Grants from the National Institute of Health ( R01 AI 064913 ; W.B. and C.H.S.), the US Environmental Protection Agency STAR Research Assistance Agreement (No. RD 83482301 to W.B.), an NIH/EPA STAR joint program award (RE-83406601-0 to CHS), and a contract from the US Food and Drug Administration (HHSF22320011I). The article has not been formally reviewed by the EPA, and the views expressed in this document are solely those of the authors.
PY - 2011/6/1
Y1 - 2011/6/1
N2 - Many concerns have been raised about the potential allergenicity of novel, recombinant proteins into food crops. Guidelines, proposed by WHO/FAO and EFSA, include the use of bioinformatics screening to assess the risk of potential allergenicity or cross-reactivities of all proteins introduced, for example, to improve nutritional value or promote crop resistance. However, there are no universally accepted standards that can be used to encode data on the biology of allergens to facilitate using data from multiple databases in this screening. Therefore, we developed AllerML a markup language for allergens to assist in the automated exchange of information between databases and in the integration of the bioinformatics tools that are used to investigate allergenicity and cross-reactivity. As proof of concept, AllerML was implemented using the Structural Database of Allergenic Proteins (SDAP; http://fermi.utmb.edu/SDAP/) database. General implementation of AllerML will promote automatic flow of validated data that will aid in allergy research and regulatory analysis.
AB - Many concerns have been raised about the potential allergenicity of novel, recombinant proteins into food crops. Guidelines, proposed by WHO/FAO and EFSA, include the use of bioinformatics screening to assess the risk of potential allergenicity or cross-reactivities of all proteins introduced, for example, to improve nutritional value or promote crop resistance. However, there are no universally accepted standards that can be used to encode data on the biology of allergens to facilitate using data from multiple databases in this screening. Therefore, we developed AllerML a markup language for allergens to assist in the automated exchange of information between databases and in the integration of the bioinformatics tools that are used to investigate allergenicity and cross-reactivity. As proof of concept, AllerML was implemented using the Structural Database of Allergenic Proteins (SDAP; http://fermi.utmb.edu/SDAP/) database. General implementation of AllerML will promote automatic flow of validated data that will aid in allergy research and regulatory analysis.
KW - Allergen database
KW - Allergen markup language
KW - Bioinformatics guidelines
KW - Risk assessment
UR - http://www.scopus.com/inward/record.url?scp=79956001809&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=79956001809&partnerID=8YFLogxK
U2 - 10.1016/j.yrtph.2011.03.006
DO - 10.1016/j.yrtph.2011.03.006
M3 - Article
C2 - 21420460
AN - SCOPUS:79956001809
SN - 0273-2300
VL - 60
SP - 151
EP - 160
JO - Regulatory Toxicology and Pharmacology
JF - Regulatory Toxicology and Pharmacology
IS - 1
ER -