DNA microarray analysis of chromosomal susceptibility regions to identify candidate genes for allergic disease: A pilot study
(2004) In Acta Oto-Laryngologica 124(7). p.813-819- Abstract
- Objective-To examine whether DNA microarray analysis of chromosomal susceptibility regions for allergy can help to identify candidate genes. Material and Methods-Nasal biopsies were obtained from 23 patients with allergic rhinitis and 12 healthy controls. RNA was extracted from the biopsies and pooled into three patient and three control pools. These were then analysed in duplicate with DNA microarrays containing 12626 genes. Candidate genes were further examined in nasal biopsies (real-time polymerase chain reaction) and blood samples (single nucleotide polymorphisms) from other patients with allergic rhinitis and from controls. Results-A total of 37 differentially expressed genes were identified according to criteria involving both the... (More)
- Objective-To examine whether DNA microarray analysis of chromosomal susceptibility regions for allergy can help to identify candidate genes. Material and Methods-Nasal biopsies were obtained from 23 patients with allergic rhinitis and 12 healthy controls. RNA was extracted from the biopsies and pooled into three patient and three control pools. These were then analysed in duplicate with DNA microarrays containing 12626 genes. Candidate genes were further examined in nasal biopsies (real-time polymerase chain reaction) and blood samples (single nucleotide polymorphisms) from other patients with allergic rhinitis and from controls. Results-A total of 37 differentially expressed genes were identified according to criteria involving both the size and consistency of the gene expression levels. The chromosomal location of these genes was compared with the chromosomal susceptibility regions for allergic disease. Using a statistical method, five genes were identified in these regions, including serine protease inhibitor, Kazal type, 5 (SPINK5) and HLA-DRB2. The relevance of these genes was examined in other patients with allergic rhinitis and in controls; none of the genes were differentially expressed in nasal biopsies. Moreover, no association between allergic rhinitis and SPINK5 polymorphisms was found, at either the genotype or haplotype level. Conclusions-DNA microarray analysis of chromosomal susceptibility regions did not lead to identification of candidate genes that could be validated in a new material. However, because gene polymorphisms may cause differential gene expression, further studies, including validation data, are needed to examine this approach. (Less)
Please use this url to cite or link to this publication:
https://lup.lub.lu.se/record/898479
- author
- Benson, M ; Svensson, PA ; Adner, M ; Caren, H ; Carlsson, B ; Carlsson, LMS ; Martinsson, T ; Rudemo, M and Cardell, Lars-Olaf LU
- organization
- publishing date
- 2004
- type
- Contribution to journal
- publication status
- published
- subject
- keywords
- allergic rhinitis, expression profiling, microarray, linkage analysis
- in
- Acta Oto-Laryngologica
- volume
- 124
- issue
- 7
- pages
- 813 - 819
- publisher
- Taylor & Francis
- external identifiers
-
- pmid:15370566
- wos:000223997900010
- scopus:4644233904
- pmid:15370566
- ISSN
- 1651-2251
- DOI
- 10.1080/00016480410018025
- language
- English
- LU publication?
- yes
- id
- b2605cb4-833f-4cb7-ad8c-fa6f394f2eb3 (old id 898479)
- date added to LUP
- 2016-04-01 16:26:21
- date last changed
- 2022-01-28 19:44:56
@article{b2605cb4-833f-4cb7-ad8c-fa6f394f2eb3,
abstract = {{Objective-To examine whether DNA microarray analysis of chromosomal susceptibility regions for allergy can help to identify candidate genes. Material and Methods-Nasal biopsies were obtained from 23 patients with allergic rhinitis and 12 healthy controls. RNA was extracted from the biopsies and pooled into three patient and three control pools. These were then analysed in duplicate with DNA microarrays containing 12626 genes. Candidate genes were further examined in nasal biopsies (real-time polymerase chain reaction) and blood samples (single nucleotide polymorphisms) from other patients with allergic rhinitis and from controls. Results-A total of 37 differentially expressed genes were identified according to criteria involving both the size and consistency of the gene expression levels. The chromosomal location of these genes was compared with the chromosomal susceptibility regions for allergic disease. Using a statistical method, five genes were identified in these regions, including serine protease inhibitor, Kazal type, 5 (SPINK5) and HLA-DRB2. The relevance of these genes was examined in other patients with allergic rhinitis and in controls; none of the genes were differentially expressed in nasal biopsies. Moreover, no association between allergic rhinitis and SPINK5 polymorphisms was found, at either the genotype or haplotype level. Conclusions-DNA microarray analysis of chromosomal susceptibility regions did not lead to identification of candidate genes that could be validated in a new material. However, because gene polymorphisms may cause differential gene expression, further studies, including validation data, are needed to examine this approach.}},
author = {{Benson, M and Svensson, PA and Adner, M and Caren, H and Carlsson, B and Carlsson, LMS and Martinsson, T and Rudemo, M and Cardell, Lars-Olaf}},
issn = {{1651-2251}},
keywords = {{allergic rhinitis; expression profiling; microarray; linkage analysis}},
language = {{eng}},
number = {{7}},
pages = {{813--819}},
publisher = {{Taylor & Francis}},
series = {{Acta Oto-Laryngologica}},
title = {{DNA microarray analysis of chromosomal susceptibility regions to identify candidate genes for allergic disease: A pilot study}},
url = {{http://dx.doi.org/10.1080/00016480410018025}},
doi = {{10.1080/00016480410018025}},
volume = {{124}},
year = {{2004}},
}