Abstract
Methods 35 individuals (17 ERs and 18 DRs) participated in the allergen inhalation challenge. Blood samples were obtained prior to and 2 hours post allergen inhalation challenge. HiSeq-Illumina paired-ends 100bp sequencing was performed. A UCSC transcriptome using both the UCSC gene and gene-isoform transcripts was created using the RSEM (RNA-Seq by Expectation Maximization) package. RSEM uses Bowtie to align read files to the reference transcripts and estimates the expected number of counts per transcript. The biomarker pipeline consisted of 20x5-fold deep cross-validation using limma voom (linear models for microarrays and RNA-Seq using variance modeling at the observational level) for differential expression and elastic net for classification. Gene set enrichment analysis was performed using GeneGo.
Highlights
Asthmatic individuals respond differently, but reproducibly, to allergen inhalation challenge
There were 511 gene transcripts identified across the 100 panels
Pathway analysis of the 511 gene transcripts identified lectin induced complement pathway, integrin inside-out signaling, alternative complement pathway and function of MEF2 in T lymphocytes as the top ranked pathways
Summary
Amrit Singh1,2*, Casey P Shannon, Gail M Gauvreau, Paul M O’Byrne, J Mark FitzGerald, Louis-Philippe Boulet, Scott J Tebbutt. From Canadian Society of Allergy and Clinical Immunology Annual Scientific Meeting 2014 Ottawa, ON, Canada. From Canadian Society of Allergy and Clinical Immunology Annual Scientific Meeting 2014 Ottawa, ON, Canada. 23-26 October 2014
Sign-in/Register to view highlights & summary Sign-in/Register to access full text options 
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Schedule a callDisclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.
