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| Status |
Public on Jan 01, 2014 |
| Title |
Human Airway Smooth Muscle Transcriptome Changes in Response to Asthma Medications |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Rationale: Asthma is a chronic inflammatory airway disease. The most common medications used for its treatment are β2-agonists and glucocorticosteroids, and one of the primary tissues that these drugs target in the treatment of asthma is the airway smooth muscle. We used RNA-Seq to characterize the human airway smooth muscle (HASM) transcriptome at baseline and under three asthma treatment conditions.
Methods: The Illumina TruSeq assay was used to prepare 75bp paired-end libraries for HASM cells from four white male donors under four treatment conditions: 1) no treatment; 2) treatment with a β2-agonist (i.e. Albuterol, 1μM for 18h); 3) treatment with a glucocorticosteroid (i.e. Dexamethasone (Dex), 1μM for 18h); 4) simultaneous treatment with a β2-agonist and glucocorticoid, and the libraries were sequenced with an Illumina Hi-Seq 2000 instrument. The Tuxedo Suite Tools were used to align reads to the hg19 reference genome, assemble transcripts, and perform differential expression analysis using the protocol described in https://github.com/blancahimes/taffeta
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| |
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| Overall design |
mRNA profiles obtained via RNA-Seq for four primary human airway smooth muscle cell lines that were treated with dexamethasone, albuterol, dexamethasone+albuterol or were left untreated.
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| |
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| Contributor(s) |
Himes B, Lu Q |
| Citation(s) |
24926665, 36599824 |
| |
| Submission date |
Nov 26, 2013 |
| Last update date |
Jan 13, 2023 |
| Contact name |
Blanca E Himes |
| E-mail(s) |
bhimes@pennmedicine.upenn.edu
|
| Organization name |
University of Pennsylvania
|
| Department |
Department of Biostatistics, Epidemiology and Informatics
|
| Lab |
402 Blockley Hall
|
| Street address |
423 Guardian Dr
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (16)
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| Relations |
| BioProject |
PRJNA229998 |
| SRA |
SRP033351 |
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