|
| Status |
Public on Jun 25, 2024 |
| Title |
CD11b cells from the brain, 16 wk WNV 2 |
| Sample type |
SRA |
| |
|
| Source name |
CD11b+ cells from the brain
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL6/J
age: 16 wk
cell type: CD11b+ cells from the brain
infection: West Nile Virus E218A infection 30 days post
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAGEN RNAeasy Micro
Library preparation was performed with 10ng of total RNA with a Bioanalyzer RIN score greater than 8.0. ds-cDNA was prepared using the SMARTer Ultra Low RNA kit for Illumina Sequencing (Takara-Clontech) per manufacturer's protocol. cDNA was fragmented using a Covaris E220 sonicator using peak incident power 18, duty factor 20%, cycles per burst 50 for 120 seconds. cDNA was blunt ended, had an A base added to the 3' ends, and then had Illumina sequencing adapters ligated to the ends. Ligated fragments were then amplified for 12-15 cycles using primers incorporating unique dual index tags.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Sample N2
|
| Data processing |
STAR Aligner 2.7.8a
Assembly: Mus musculus mm39_ensembl_release105_v2
Supplementary files format and content: Partek_CD11b_2B_Aged_Mice_RNA-Seq_Quantify_to_annotation_model_(Partek_E_M)_Gene_counts.txt (reads quantified to mm39 - Ensembl Transcripts release 105)
|
| |
|
| Submission date |
Jun 25, 2024 |
| Last update date |
Jun 25, 2024 |
| Contact name |
Robyn S. Klein |
| E-mail(s) |
rklein8@uwo.ca
|
| Organization name |
University of Western Ontario
|
| Street address |
100 Perth Dr
|
| City |
London |
| State/province |
ON |
| ZIP/Postal code |
N6A 5K8 |
| Country |
Canada |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE270687 |
West Nile Virus-induced expression of senescent gene Lgals3bpregulates microglial phenotype within cerebral cortex |
|
| Relations |
| BioSample |
SAMN42023508 |
| SRA |
SRX25041264 |
