|
| Status |
Public on Jun 01, 2023 |
| Title |
Kidney, AZD8055, rep 3 |
| Sample type |
SRA |
| |
|
| Source name |
Kidney
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Kidney
strain: UM-HET3
Sex: Male
treatment: AZD8055
dose: 20 ppm
age: 4 months
|
| Treatment protocol |
3-month old male mice were kept on control diet (Purina 5LG6) or the same diet supplied with AS-703026, ascorbyl-palmitate, AZD8055, enzastaurin, GDC-0941 and KU0063794 for 1 month.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
After sacrifice, liver and kidney were removed and frozen on dry ice. RNA was extracted from tissues with PureLink RNA Mini Kit and passed to CEL-seq.
Sequencing libraries were prepared as described in (Hashimshony et al., 2016).
CEL-seq
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
AZD8055_kidney_3
|
| Data processing |
HiSeq Control Software v2.2 was used for system control and base calling through an integrated primary analysis software RTA (Real Time Analysis. v1.18). The BCL (base calls) binary was converted into FASTQ utilizing illumina package bcl2fastq (v1.8.4).
Quality filtering and adapter removal were performed using Trimmomatic version 0.32.
Reads were mapped to mm10 mouse genome using STAR (version 2.5.2b). Genes were counted via featureCounts (version 1.5).
Assembly: mm10
Supplementary files format and content: comma-separated values file includes gene counts for each sample
|
| |
|
| Submission date |
Mar 14, 2023 |
| Last update date |
Jun 01, 2023 |
| Contact name |
Alexander Tyshkovskiy |
| E-mail(s) |
alex.tyshkovskiy@gmail.com
|
| Organization name |
Brigham & Women's Hospital, Harvard Medical School
|
| Street address |
77 Avenue Louis Pasteur
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE227358 |
RNA sequencing of mouse liver and kidney after 1-month treatment with predicted longevity compounds |
| GSE227360 |
Distinct longevity mechanisms across and within species and their association with aging |
|
| Relations |
| BioSample |
SAMN33761763 |
| SRA |
SRX19678030 |
