Positional candidate gene approach and functional genomics strategy in atopy gene discovery

R. G. Nickel, F. P. Saitta, L. R. Freidhoff, X. Y. Yu, E. Ehrlich, K. C. Barnes, T. Beaty, Shau Ku Huang

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

As part of our effort in searching for genetic factors contributing to the susceptibility to atopy and asthma, we have focused on a 'positional candidate' approach in identifying CC chemokine gene polymorphisms and their functional correlates. To date, a single-nucleotide polymorphism was found in the RANTES proximal promoter region, and a high degree of sequence variation was identified in the 3'-untranslated region -of the eotaxin gene. Also, we are pursuing a series of functional genomics' studies designed to identify differentially expressed genes in a panel of allergen-specific human Th2 cells and in antigen-induced hyperreactive murine airways. This is performed using a combination of protocols including suppression-subtractive hybridization and cDNA array hybridizations with 18,363 nonredundant sequences. A data base is being generated from a list of subtracted cDNA sequences and array-positive clones to categorize differentially expressed genes. Sequences are being placed in biologically relevant categories on the basis of function (i.e., receptor, signal transduction pathways, transcription, and translation). With the increasing amount of sequence information compiled by the Human Genome Project, it will be particularly challenging to integrate functional gene-mapping efforts to define and compare aberrant genotypes/phenotypes in atopic diseases.

Original languageEnglish
Pages (from-to)282-284
Number of pages3
JournalInternational Archives of Allergy and Immunology
Volume118
Issue number2-4
DOIs
Publication statusPublished - Jan 1 1999
Externally publishedYes

Fingerprint

Genetic Association Studies
Genomics
Oligonucleotide Array Sequence Analysis
Genes
Human Genome Project
Chemokine CCL5
CC Chemokines
Th2 Cells
Chromosome Mapping
3' Untranslated Regions
Genetic Promoter Regions
Allergens
Single Nucleotide Polymorphism
Signal Transduction
Asthma
Clone Cells
Genotype
Databases
Phenotype
Antigens

Keywords

  • Asthma
  • Atopy
  • Candidate gene approach
  • CC chemokine
  • cDNA/oligonucleotide array
  • Functional genomics

ASJC Scopus subject areas

  • Immunology and Allergy
  • Immunology

Cite this

Positional candidate gene approach and functional genomics strategy in atopy gene discovery. / Nickel, R. G.; Saitta, F. P.; Freidhoff, L. R.; Yu, X. Y.; Ehrlich, E.; Barnes, K. C.; Beaty, T.; Huang, Shau Ku.

In: International Archives of Allergy and Immunology, Vol. 118, No. 2-4, 01.01.1999, p. 282-284.

Research output: Contribution to journalArticle

Nickel, RG, Saitta, FP, Freidhoff, LR, Yu, XY, Ehrlich, E, Barnes, KC, Beaty, T & Huang, SK 1999, 'Positional candidate gene approach and functional genomics strategy in atopy gene discovery', International Archives of Allergy and Immunology, vol. 118, no. 2-4, pp. 282-284. https://doi.org/10.1159/000024100
Nickel, R. G. ; Saitta, F. P. ; Freidhoff, L. R. ; Yu, X. Y. ; Ehrlich, E. ; Barnes, K. C. ; Beaty, T. ; Huang, Shau Ku. / Positional candidate gene approach and functional genomics strategy in atopy gene discovery. In: International Archives of Allergy and Immunology. 1999 ; Vol. 118, No. 2-4. pp. 282-284.
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