|
| Status |
Public on Jul 14, 2021 |
| Title |
038B_S40 RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
Lymphoma
|
| Organism |
Canis lupus familiaris |
| Characteristics |
tissue: lymphoma tumour
immunophenotype: T-Cell
time of sampling: 6 weeks into treatment
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen Rneasy
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Reads aligned to CanFam3.1 reference genome with Hisat2 2.1.0
Gene annotation and expression with StringTie 1.3.3
Raw read counts calculated using prepDE .py from Ballgown R package
FPKM values calculated using the Ballgown R package
Genome_build: CanFam3.1 reference genome
Supplementary_files_format_and_content: Tab-delimited text files include either raw read count or FPKM values for
|
| |
|
| Submission date |
Jul 12, 2021 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Miles Mee |
| E-mail(s) |
miles.william.mee@gmail.com
|
| Organization name |
Ontario Institute for Cancer Research
|
| Street address |
661 University Ave Suite 510
|
| City |
Toronto |
| ZIP/Postal code |
M5G 0A3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL22370 |
| Series (1) |
| GSE179920 |
Longitudinal Study of Transcriptomic Changes Occurring Over the Course of CHOP Treatment in Canine Lymphoma |
|
| Relations |
| BioSample |
SAMN20169857 |
| SRA |
SRX11410901 |
