|
| Status |
Public on Jan 15, 2023 |
| Title |
m.pectoralis sample, trained [RNA_S3848Nr11] |
| Sample type |
SRA |
| |
|
| Source name |
skeletal muscle
|
| Organism |
Columba livia |
| Characteristics |
tissue: skeletal muscle
treatment: case-trained
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA was isolated using by TriReagent (Ambion, Life Technologies) and according to the method described by Chomczyński (Chomczynski 1993).
RNA libraries for RNA-seq were prepared using TruSeq RNA Library Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Illumina bcl2fastq (2.20)
Quality Control FastQC v0.11.5
Adapters were trimmed, reads of low quality (<20) and under the length of 36 bp were removed with the use of Flexbar software
The reads were mapped with STAR software to Colliv 2.1 genome and counted with the use of htseq-count software to the respective gtf file.
Deseq2 was used to find differentially expressed genes.
Assembly: 2.1_Colliv
Supplementary files format and content: counts
|
| |
|
| Submission date |
Jan 10, 2023 |
| Last update date |
Jan 15, 2023 |
| Contact name |
Monika Stefaniuk-Szmukier |
| E-mail(s) |
monika.stefaniuk@iz.edu.pl
|
| Phone |
+48666081261
|
| Organization name |
National Research Institution of Animal Production
|
| Department |
Department of Animal Molecular Biology
|
| Street address |
ul.Krakowska 1
|
| City |
Balice |
| ZIP/Postal code |
32-083 |
| Country |
Poland |
| |
|
| Platform ID |
GPL29485 |
| Series (1) |
| GSE222537 |
First Transcriptomic insight into the working muscles of racing pigeons during a competition flight |
|
| Relations |
| BioSample |
SAMN32659623 |
| SRA |
SRX18989277 |
