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Sample GSM3511661 Query DataSets for GSM3511661
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

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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