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Sample GSM5629039 Query DataSets for GSM5629039
Status Public on Oct 19, 2021
Title Liver, Ad-GFP-2
Sample type SRA
 
Source name Liver, Ad-GFP
Organism Mus musculus
Characteristics tissue: liver
strain: ob/ob
treatment: Ad-GFP
Treatment protocol The mice were administered with Ad-Inpolin or Ad-GFP (1×109 plaque-forming units) through the tail vein and sacrificed at 12th day of administration.
Growth protocol Male ob/ob mice aged 8-12 weeks were purchased from GemPharmatech Company (Nanjing, China).
Extracted molecule total RNA
Extraction protocol RNA extraction protocol
library construction protocol
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Paired-end reads were harvested from Illumina NovaSeq 6000 sequencer, and were quality controlled by Q30.
After 3’ adaptor-trimming and low quality reads removing by cutadapt software (v1.9.3), the high quality clean reads were aligned to the mouse reference genome (UCSC MM10) with hisat2 software (v2.0.4).
Then, guided by the Ensembl gtf gene annotation file, cuffdiff software (part of cufflinks) was used to get the gene level FPKM as the expression profiles of mRNA.
Fold change>=2.0, that is, log(FC)>=1.0, p-value<=0.05, and FPKM value>=0.1 in at least one (or a group of) samples as the threshold for differential screening.
Genome_build: MM10
Supplementary_files_format_and_content: mRNA Expression Profiling.xls (FPKM Values)
 
Submission date Oct 16, 2021
Last update date Oct 19, 2021
Contact name Yunchen Luo
E-mail(s) luoyunchen@sjtu.edu.cn
Organization name Shanghai Jiao Tong University School of Medicine
Street address shanghai hongkou
City Shanghai
ZIP/Postal code 200085
Country China
 
Platform ID GPL24247
Series (1)
GSE186024 Orosomucoid 2 maintains hepatic lipid homeostasis through suppression of de novo lipogenesis
Relations
BioSample SAMN22346283
SRA SRX12645677

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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