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Clinical

Genome-wide expression profiling of B Lymphocytes reveals IL4R increase in allergic asthma- GSE52742

Purpose

In this study we present the first genome-wide expression profiling of peripheral B cells by massive parallel RNA sequencing in patients with allergic asthma validating the discovery potential of this approach in allergy.

Hypothesis

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Experimental Design
RNA-seq was used to asses expression differences in B CD19 Lymphocytes from house dust mite allergic patients and healthy controls.
Experimental Variables

house dust mite allergy.

Controls

3 healthy controls.

Methods

Results were generated using the WASP system pipeline provided by Albert Einstein College of Medicine. Raw FASTQ files were trimmed for adapter sequences using quart. Alignment to the reference genome was performed using gsnap.Assignment of reads to genes was performed by htseq-count.Genome_build: HG 19Supplementary_files_format_and_content: A txt file format containing the Ensemble ID and the absolute number of counts per ID

Additional Information

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE52742

Microarray
Ensembl Human v37
6 Samples Loaded: 6
Human (Homo sapiens)
B cells , B Lymphocytes , B CD19 Lymphocytes
Asthma
Peripheral blood CD19+ B lymphocytes were isolated using immuno-magnetic procedures and FACS analysis was used to confirm the purity of the sorted cellular populations
Sample Set Spreadsheet
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Samples Preview
Sample ID Grouping
Control_1_48C Control
Control_2_51C Control
Control_3_56C Control
Patient_1_43P House dust mite allergic
Patient_2_55P House dust mite allergic
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File
sampleset4000096_sampleannotations.csv
Sample Set Spreadsheet
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Sample ID Grouping
Control_1_48C
Control
Control_2_51C
Control
Control_3_56C
Control
Patient_1_43P
House dust mite allergic
Patient_2_55P
House dust mite allergic
Patient_3_57P
House dust mite allergic

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