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Status |
Public on Apr 23, 2024 |
Title |
spleen HA10-3 |
Sample type |
SRA |
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Source name |
spleen
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Organism |
Mus musculus |
Characteristics |
strain: ICR tissue: spleen age: 10 weeks treatment: High fat diet +AOS10mg/kg
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Extracted molecule |
total RNA |
Extraction protocol |
Spleen were removed, quikly frozen in luquid nitrogen, and RNA was harvested using Trizol reagent. PurelinkTM RNA Mini Kit (Cat#12183018A) was used to abtain 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
MGISEQ-2000RS |
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Data processing |
Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome using bowtie v0.12.2 with parameters -q -p 4 -e 100 -y -a -m Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library. Genome_build: mm10 Supplementary_files_format_and_content: includ gene expression
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Submission date |
Jun 03, 2021 |
Last update date |
Apr 23, 2024 |
Contact name |
Yong Zhao |
E-mail(s) |
yzhao818@hotmail.com
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Phone |
86-18661613617
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Organization name |
Qingdao Agricultural University
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Department |
College of Life Sciences
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Lab |
B604
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Street address |
700 Changcheng Road
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City |
Qingdao |
State/province |
Shandong |
ZIP/Postal code |
266109 |
Country |
China |
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Platform ID |
GPL30215 |
Series (1) |
GSE176110 |
AOS10-FMT could rescure the adverse effects induced by high fat diet on the Spleen |
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Relations |
BioSample |
SAMN19549888 |
SRA |
SRX11055216 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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