|
| Status |
Public on Jan 16, 2023 |
| Title |
Neu (Nose): Nasal Neutrophils |
| Sample type |
SRA |
| |
|
| Source name |
nose
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
age: 6-15 weeks
genotype: wild-type
lps treatment: 1 day after LPS
tissue: nose
cell type: CD45+Ly6G+SiglecF-
|
| Treatment protocol |
LPS intranasal instillation (10 µg of LPS in 10 µL of PBS into bilateral nostrils)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Neutrophils and DP cells were fractionated from mice by using a cell sorter after LPS intranasal instillation. Sorted cells were lysed in TRIzol LS reagent (Thermo Fisher Scientific) and total RNA was extracted.
DNA library preparation for RNA-Seq analysis using a [an NEBNext Single Cell/Low Input RNA Library Prep Kit for Illumina (NEB)].
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Description |
S15070
|
| Data processing |
Read alignment: TopHat2 v2.0.8 and Bowtie2 v2.1.0 with default settings
expression level: Cufflinks v2.1.1 with default settings
FPKM (Fragments per Kirobase per Million reads) were calculated.
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample ...
|
| |
|
| Submission date |
Jan 20, 2020 |
| Last update date |
Jan 16, 2023 |
| Contact name |
Hidehiro FUKUYAMA |
| E-mail(s) |
hidehiro.fukuyama@riken.jp
|
| Organization name |
RIKEN
|
| Department |
IMS
|
| Lab |
Lymphocyte Differentiation
|
| Street address |
1-7-22, Suehirocho, Tsurumi-ku
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE143938 |
Gene expression analysis of nasal Ly6G+SiglecF+ double positive cells |
|
| Relations |
| BioSample |
SAMN13887585 |
| SRA |
SRX7583963 |
