|
| Status |
Public on Feb 19, 2019 |
| Title |
WT_PBS2 |
| Sample type |
SRA |
| |
|
| Source name |
Lung
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57BL/6
genotype/variation: wild type
tissue: Lung
age: 6-8 weeks
treatment: PBS
|
| Treatment protocol |
Four groups of mice were intranasally injected with PBS or Bleomycin for ten days.
|
| Growth protocol |
All mice were maintained in specific-pathogen-free (SPF) facility without co-housing.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mice were euthanized and lung tissues were removed for RNA collection.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
processed data file: Bleomycin-vs-PBS.FPKM.txt
|
| Data processing |
Bowtie2 was used to map clean reads to reference gene. Bowtie2 parameters for SE reads:-q--phred64--sensitive--dpad0--gbar99999999--mp1,1--np1--score-minL,0,-0.1-p16-k 200
HISAT was used to map clean reads to reference genome. HISAT parameters for SE reads:-p8--phred64--sensitive-I1-X 1000
FPKM method is used in calculated expression level.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: Bleomycin-vs-PBS.FPKM.txt: Tab-delimited text file includes FPKM values for each Sample.
|
| |
|
| Submission date |
Dec 13, 2018 |
| Last update date |
Feb 19, 2019 |
| Contact name |
Daping Yang |
| Organization name |
SIBS
|
| Street address |
No.320 Yueyang Road, Xuhui District
|
| City |
Shanghai |
| ZIP/Postal code |
200032 |
| Country |
China |
| |
|
| Platform ID |
GPL23479 |
| Series (1) |
| GSE123808 |
Changes of metabolic genes expression in lungs of bleomycin-treated mice |
|
| Relations |
| BioSample |
SAMN10589626 |
| SRA |
SRX5128403 |
