|
| Status |
Public on Dec 28, 2022 |
| Title |
103627-001-132 |
| Sample type |
SRA |
| |
|
| Source name |
lesion
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: Psoriatic Arthritis
tissue: Skin
age: 61
Sex: Female
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Skin samples were derived from 4mm punch biopsies were embedded in Tissue-Tek® and directly snap-frozen in liquid nitrogen, until further processing. Sections were cut (20µm) and dissolved and lysed in RLT plus (+BME) buffer. Samples were vortexed and homogenized by pipets before RNA isolation. RNA isolation was performed using a Qiagen Universal Kit, according to manufacturer’s protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The reads obtained were aligned to human genome (GRCh38 build 99) using STAR aligner (version 020201) and mapped reads were counted using HTSeq-count (version 0.9.0)
Genome_build: GRCh38 build 99
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Oct 18, 2021 |
| Last update date |
Dec 28, 2022 |
| Contact name |
Aridaman Pandit |
| Organization name |
University Medical Center Utrecht
|
| Street address |
Heidelberglaan 100
|
| City |
Utrecht |
| ZIP/Postal code |
3584 CX |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE186063 |
Multi-omics profiling reveals the interactions of host defense and hyper-keratinization in psoriasis |
|
| Relations |
| BioSample |
SAMN22371531 |
| SRA |
SRX12671676 |
