|
| Status |
Public on Jul 17, 2015 |
| Title |
Light exposure plus minocycline rep 1 |
| Sample type |
SRA |
| |
|
| Source name |
retina_1hr_light_minocycline
|
| Organism |
Mus musculus |
| Characteristics |
strain: CD1
treatment: 10.000 Lux light exposure for 1h + 45 mg/kg minocycline injection i.p. daily for 4 days, analysis after four days
tissue: retina
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Retinas were removed and RNA was harvested using Qiagen RNeasy Kit.
Library preparation and RNAseq were carried out as described in the Illumina TruSeq Stranded mRNA Sample Preparation Guide, the Illumina HiSeq 1000 System User Guide (Illumina, Inc., San Diego, CA, USA), and the KAPA Library Quantification Kit - Illumina/ABI Prism User Guide (Kapa Biosystems, Inc., Woburn, MA, USA).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
| |
|
| Data processing |
Illumina Casava1.8.2 software used for basecalling.
The analyses were performed with the Illumina RNA Express software that aligns RNA-Seq reads with STAR aligner, assigns reads to genes and performs differential gene expression with DESeq2
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text file includes Dseq2-normalized counts.
|
| |
|
| Submission date |
Jul 16, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Thomas Langmann |
| E-mail(s) |
thomas.langmann@uk-koeln.de
|
| Organization name |
University of Cologne
|
| Department |
Department of Ophthalmology
|
| Lab |
Experimental Immunology of the Eye
|
| Street address |
Kerpener Strasse 62
|
| City |
Cologne |
| ZIP/Postal code |
50931 |
| Country |
Germany |
| |
|
| Platform ID |
GPL15103 |
| Series (1) |
| GSE71025 |
Minocycline counter regulates the global pro-inflammatory response in microglia and protects from retinal degeneration |
|
| Relations |
| BioSample |
SAMN03863792 |
| SRA |
SRX1099816 |
