|
| Status |
Public on Aug 11, 2024 |
| Title |
U19_RNA_seq_02R_S11 |
| Sample type |
SRA |
| |
|
| Source name |
female, brain, animal ID=NLC_BPC_0022
|
| Organism |
Papio anubis |
| Characteristics |
Sex: female
age: 19.81
tissue: brain
animal id: NLC_BPC_0022
|
| Treatment protocol |
Baboons were fed normal monkey chow diet ad libitum and had free access to water. They were provided with veterinary care throughout their lives.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from frozen brain tissues using the Direct-zol RNA MiniPrep Plus kits.
Stranded RNA-Seq libraries were constructed from total RNA using the KAPA RNA HyperPrep Kit with RiboErase according to the manufacturer's protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Raw sequencing data were de-multiplexed using Illumina bcl2fastq.
Prealignment QC was performed, and sequence reads with Phred scores < Q30 were discarded.
Sequence reads were aligned against the olive baboon reference genome (Panu_3.0) using STAR 2.5.3.a.
Aligned reads were quantified using an expectation-maximization algorithm in Partek Flow and annotated using NCBI annotation (release 93).
Transcript counts were normalized by the Trimmed mean of M-values method prior to performing WGCNA.
Assembly: Panu_3.0, GCF_000264685.3
Supplementary files format and content: Matrix table of transcript counts before normalization for 34 samples.
Supplementary files format and content: Matrix table of transcript counts after normalization for 34 samples.
|
| |
|
| Submission date |
Sep 22, 2022 |
| Last update date |
Aug 11, 2024 |
| Contact name |
Jeannie Chan |
| E-mail(s) |
jchan@wakehealth.edu
|
| Organization name |
Wake Forest School of Medicine
|
| Department |
Internal Medicine
|
| Street address |
Medical Center Boulevard
|
| City |
Winston-Salem |
| State/province |
NC |
| ZIP/Postal code |
27157 |
| Country |
USA |
| |
|
| Platform ID |
GPL30489 |
| Series (1) |
| GSE213926 |
Transcriptomes of normal aging brains in female nonhuman primates. |
|
| Relations |
| BioSample |
SAMN30961483 |
| SRA |
SRX17673840 |
