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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Apr 20, 2023 |
| Title |
48_7_gWAT |
| Sample type |
SRA |
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| Source name |
gonadal white adipose tissue
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| Organism |
Mus musculus |
| Characteristics |
tissue: gonadal white adipose tissue
Sex: female
strain: BTBR T<+> tf/J
exercise group: Sedentary
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Whole quadriceps, gonadal white adipose tissue, heart, brown adipose tissue, and a portion of the liver were pulverized at the temperature of liquid nitrogen. Tissue was homogenized in Trizol (Invitrogen, Carlsbad, CA, USA), RNA was isolated using the RNeasy Isolation Kit (Qiagen, Hilden, Germany), and RNA concentration and quality were assessed (RIN > 7.0 used in downstream applications)
Libraries were prepared using KAPA mRNA HyperPrep Kits and KAPA Dual Index Adapters (Roche, Basel, Switzerland) per manufacturer’s instructions. A total of 800-1000 ng of RNA was used for library preparation with settings 200-300 bp and 12 PCR cycles. The resultant libraries were tested for quality.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
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| Description |
gWAT.counts.txt
gWAT.TPM.txt
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| Data processing |
Quality inspection of raw RNA-Seq reads was performed with FastQC v0.11.9.
Counts and TPM values were obtained using kallisto v0.45 against the Ensembl mouse transcriptome (v97)
Assembly: mm10
Supplementary files format and content: tab-delimited files contain counts and TPM values
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| Submission date |
Apr 19, 2023 |
| Last update date |
Apr 20, 2023 |
| Contact name |
Calvin Pan |
| Organization name |
UCLA
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| Street address |
675 Charles Young Dr South
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| City |
Los Angeles |
| ZIP/Postal code |
90095 |
| Country |
USA |
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| Platform ID |
GPL21493 |
| Series (1) |
| GSE230102 |
Conserved multitissue transcriptomic adaptations to exercise training in humans and mice |
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| Relations |
| BioSample |
SAMN34256566 |
| SRA |
SRX20018188 |
| 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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