|
| Status |
Public on Sep 06, 2021 |
| Title |
BC12h: sampling B control 12h |
| Sample type |
SRA |
| |
|
| Source name |
pulp
|
| Organism |
Carica papaya |
| Characteristics |
tissue: pulp
|
| Treatment protocol |
Treated samples were treated with 100-ppm ethylene for 12 hours in a closed system
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA of the fruits pulp was isolated using Concert ™ Plant RNA Reagent (Invitrogen®) and purified by treatment with the DNA-free ™ kit (Invitrogen®), following the protocol described by the manufacturer.
Libraries were prepared using the Illumina TruSeq Stranded mRNA LT Sample Prep Protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Libraries were paired-end sequenced using HiSeq SBS Kit v4 on the HiSeq2500 system (Illumina).
Raw RNA-seq data was checked for its quality through FastQC software and filtered by SeqyClean
Alignment of the reads was performed by the software STAR along with the count of the reads uniquely aligned
Data was normalized by DeSeq2 R package
Genome_build: Papaya1.0, GCF_000150535.2
Supplementary_files_format_and_content: table include normalized data for each sample
|
| |
|
| Submission date |
Mar 20, 2019 |
| Last update date |
Sep 06, 2021 |
| Contact name |
Caroline Giacomelli Soares |
| E-mail(s) |
cagias@usp.br
|
| Organization name |
School of Pharmaceutical Sciences, University of São Paulo
|
| Department |
Department of Food Science and Experimental Nutrition
|
| Street address |
Av. Lineu Prestes 580, Bloco 14
|
| City |
São Paulo |
| State/province |
SP |
| ZIP/Postal code |
05508-000 |
| Country |
Brazil |
| |
|
| Platform ID |
GPL26326 |
| Series (1) |
| GSE128577 |
Transcriptome profile of papaya ripening |
|
| Relations |
| BioSample |
SAMN11175651 |
| SRA |
SRX5546574 |
