Mechanisms of allergy and clinical immunologyAllele-specific transcription of the asthma-associated PHD finger protein 11 gene (PHF11) modulated by octamer-binding transcription factor 1 (Oct-1)
Section snippets
Subjects
Allele-specific expression analysis was performed in a subset of the MRC-A population, MRC-A/RNA. The MRC-A panel consists of 200 families of British descent recruited through a proband between the ages of 5 and 18 years with severe asthma, defined as 1 or more hospital admissions caused by asthma and taking maintenance-inhaled steroids. Both parents and at least 1 sibling were included for each family, regardless of disease status. EBV immortalized lymphoblastoid cell lines were created from
Bioinformatic analysis of transcription factor binding of 3 PHF11 SNPs
The sequences immediately flanking rs3765526, rs9526569 and rs1046295 were interrogated in silico for potential transcription factor binding sequences by using the programs TFSearch, TFScan, and MatInspector (Genomatix Software GmbH). A number of transcription factor binding sites were predicted to span each SNP with several instances of potential allele-specific binding (Table I).
For rs3765526, 5 transcription factors were predicted to bind specifically only to 1 allele (allele A: VBP, E4BP4,
Discussion
Previous positional cloning of chromosome 13q14 implicated PHF11 as a determinant of total serum IgE levels, although because of the possibility of a joint SETDB2-PHF11 transcript and further distant alleles affecting linkage, all 3 genes in the region, SETDB2, PHF11, and RCBTB1, could influence asthma susceptibility.13 Here we have shown by EMSA experiments that the A allele of rs1046295 is capable of interacting with the transcription factor Oct-1 with greater affinity than the alternate G
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Supported by the Wellcome Trust (075491/Z/04).
Disclosure of potential conflict of interest: The authors have declared that they have no conflict of interest.