|
Status |
Public on Jan 18, 2024 |
Title |
22-3910-mRPE |
Sample type |
SRA |
|
|
Source name |
Macula Choroid
|
Organism |
Homo sapiens |
Characteristics |
tissue: Macula Choroid disease state: Normal
|
Extracted molecule |
total RNA |
Extraction protocol |
Donor eyes were obtained from non-diabetic Caucasians at a death-to-preservation interval of <6h. Eyes were stored in RNA later before extraction of RNA. For each eye we dissected macula and periphery from retina and RPE/choroid/sclera resulting in 4 samples per eye. RNA was extracted using the ALLPrep DNA/RNA Mini Kit (Qiagen). All RNA had an RNA integrity number of ≥8. Strand specific RNA library was prepared from 100 ng total RNA using the Encore Complete RNA-Seq library kit (Nugen Technologies, San Carlos, CA). RNA-Seq on the Illumina HiSeq 2000.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v2.1.1 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger) Assembly: mm10 Supplementary files format and content: Tab-separated values files and matrix files
|
|
|
Submission date |
Apr 22, 2023 |
Last update date |
Jan 18, 2024 |
Contact name |
Dwight Edward Stambolian |
E-mail(s) |
stamboli@pennmedicine.upenn.edu
|
Phone |
2158980305
|
Organization name |
University of Pennsylvania
|
Department |
Opthalmalogy
|
Lab |
Stellar-Chance 313
|
Street address |
422 Curie Blvd.
|
City |
Philadelphia |
State/province |
PA |
ZIP/Postal code |
19104 |
Country |
USA |
|
|
Platform ID |
GPL11154 |
Series (1) |
GSE230348 |
Single cell transcriptomic analysis of human tissue (Retina and RPE/Choroid) |
|
Relations |
BioSample |
SAMN34313579 |
SRA |
SRX20062689 |