AllerML

Markup language for allergens

Ovidiu Ivanciuc, Steven M. Gendel, Trevor D. Power, Catherine H. Schein, Werner Braun

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

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.

Original languageEnglish (US)
Pages (from-to)151-160
Number of pages10
JournalRegulatory Toxicology and Pharmacology
Volume60
Issue number1
DOIs
StatePublished - Jun 1 2011

Fingerprint

Markup languages
Allergens
Language
Databases
Computational Biology
Bioinformatics
Crops
Protein Databases
Screening
Nutritive Value
Allergies
Recombinant Proteins
Bioelectric potentials
Hypersensitivity
Guidelines
Food
Proteins
Research

Keywords

  • Allergen database
  • Allergen markup language
  • Bioinformatics guidelines
  • Risk assessment

ASJC Scopus subject areas

  • Toxicology

Cite this

AllerML : Markup language for allergens. / Ivanciuc, Ovidiu; Gendel, Steven M.; Power, Trevor D.; Schein, Catherine H.; Braun, Werner.

In: Regulatory Toxicology and Pharmacology, Vol. 60, No. 1, 01.06.2011, p. 151-160.

Research output: Contribution to journalArticle

Ivanciuc, O, Gendel, SM, Power, TD, Schein, CH & Braun, W 2011, 'AllerML: Markup language for allergens', Regulatory Toxicology and Pharmacology, vol. 60, no. 1, pp. 151-160. https://doi.org/10.1016/j.yrtph.2011.03.006
Ivanciuc, Ovidiu ; Gendel, Steven M. ; Power, Trevor D. ; Schein, Catherine H. ; Braun, Werner. / AllerML : Markup language for allergens. In: Regulatory Toxicology and Pharmacology. 2011 ; Vol. 60, No. 1. pp. 151-160.
@article{5b0d55b984424c8888bbffcdbfac658d,
title = "AllerML: Markup language for allergens",
abstract = "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.",
keywords = "Allergen database, Allergen markup language, Bioinformatics guidelines, Risk assessment",
author = "Ovidiu Ivanciuc and Gendel, {Steven M.} and Power, {Trevor D.} and Schein, {Catherine H.} and Werner Braun",
year = "2011",
month = "6",
day = "1",
doi = "10.1016/j.yrtph.2011.03.006",
language = "English (US)",
volume = "60",
pages = "151--160",
journal = "Regulatory Toxicology and Pharmacology",
issn = "0273-2300",
publisher = "Academic Press Inc.",
number = "1",

}

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

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

VL - 60

SP - 151

EP - 160

JO - Regulatory Toxicology and Pharmacology

JF - Regulatory Toxicology and Pharmacology

SN - 0273-2300

IS - 1

ER -