|
| Status |
Public on Nov 13, 2019 |
| Title |
RNA sequencing of lesional and nonlesional skin from patients with atopic dermatitis |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: To determine the transcriptional differences between lesional skin and nonlesional skin from patients with atopic dermatitis
Methods: Skin biopsies of lesional and non-lesional sites on atopic dermatitis patients were obtained and stored in RNA Later. Ribosomal RNA was removed and cDNA was generated with the SMARTer kit (CloneTech) with 10 ng of total RNA per sample.
Samples were sequenced to an average depth of 34 million 1x50 reads on a HiSeq3000 (Illumina). Reads were aligned to Ensembl release 76 using STAR, gene counts were determined with Subread:featureCount, and sequence performance was assessed with RSeQC.
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| |
|
| Overall design |
Six atopic dermatitis patients
|
| |
|
| Contributor(s) |
Mack MR, Kim BS |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Nov 12, 2019 |
| Last update date |
Nov 20, 2019 |
| Contact name |
Ting-Lin Yang |
| Organization name |
Washington University of St Louis
|
| Lab |
Brian Kim
|
| Street address |
660 S. Euclid Ave., CB 8123
|
| City |
Saint Louis |
| State/province |
Missouri |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL21290 |
Illumina HiSeq 3000 (Homo sapiens) |
|
| Samples (12)
|
|
| Relations |
| BioProject |
PRJNA588999 |
| SRA |
SRP229587 |
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