|
| Status |
Public on Nov 03, 2021 |
| Title |
OTD(old mice, telogen, dWAT) |
| Sample type |
SRA |
| |
|
| Source name |
C57BL/6 mouse
|
| Organism |
Mus musculus |
| Characteristics |
tissue: dermal white adipose tissue
age: 18 months
strain: C57BL/6
hair cycle: telogen
|
| Treatment protocol |
Through microdissection, we separated dWAT from skin of aged mice (18 months) and young mice (2 months) in telogen and depilation-induced anagen for transcriptome comparing
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Trizol reagent (Invitrogen, Carlsbad, CA, USA) following manufacturer’s recommendations. RNA quality and quantity of all samples were evaluated by using Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit (Agilent, CA, USA) with RIN number > 7.5.
RNA libraries were pprepared for sequencing using standard Illumina protocals
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
dermal white adipose tissue of aged mice at telogen
|
| Data processing |
Illumina bcl2fastq software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped GRCm38 whole genome using tophat2 with parameters -read-mismatches 2 -read-edit-dist 2 -max-intron-length 5000000 -library-type fr-unstranded -num-threads 8 -mate-inner-dist 40.
Fragments Per Kilobase of transcript per Million fragments mapped (FPKM) were calculated using a protocol from Trapnell et al., Nature Biotechnology, 2010.
Genome_build: GRCm38
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Jul 25, 2019 |
| Last update date |
Nov 03, 2021 |
| Contact name |
Qian Qu |
| E-mail(s) |
985871311@qq.com
|
| Phone |
15521263230
|
| Organization name |
Nanfang Hospital of Southern Medical University
|
| Street address |
1838 North Guangzhou AV
|
| City |
GuangZhou |
| ZIP/Postal code |
510515 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE134893 |
Transcriptome analysis of mice dermal white adipose tissue during aging |
|
| Relations |
| BioSample |
SAMN12364124 |
| SRA |
SRX6592067 |
