|
| Status |
Public on Oct 02, 2021 |
| Title |
G0_1 |
| Sample type |
SRA |
| |
|
| Source name |
Apple peel samples with 0h light after unbagging
|
| Organism |
Malus domestica |
| Characteristics |
tissue: apple fruit peel
time: 0h
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent (Invitrogen, CA, USA) according to the manufacturer's procedure. Then 10 ug of total RNA was extracted according to the mRNA-Seq sample preparation kit for constructing sequencing library.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Malus × domestica Borkh.
|
| Data processing |
RNA integrity was evaluated using the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA). The samples with RNA Integrity Number (RIN) ≥ 7 were subjected to the subsequent analysis
After eliminating the reads with sequencing adapters and the low-quality reads from the raw data, the remaining clean reads were aligned to the Malus Genome GDDH13 reference sequence (version 1.1) using the HISAT2 software.
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated with Cufflinks.
Genome_build: ftp://ftp.bioinfo.wsu.edu/species/Malus_x_domestica/Malus_x_domestica-genome_GDDH13_v1.1
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample ...
|
| |
|
| Submission date |
Sep 30, 2021 |
| Last update date |
Oct 05, 2021 |
| Contact name |
Bo Zhang |
| E-mail(s) |
[email protected]
|
| Organization name |
College of Horticulture, Northwest A﹠F University
|
| Department |
College of Horticulture, Northwest A﹠F University
|
| Lab |
Zhao
|
| Street address |
College of Horticulture, Northwest A﹠F University
|
| City |
Yangling |
| State/province |
Shanxi |
| ZIP/Postal code |
712100 |
| Country |
China |
| |
|
| Platform ID |
GPL29987 |
| Series (1) |
| GSE185089 |
Transcriptome analysis of apple peel samples at different time points in the process of changing from green to red under light conditions after unbagging |
|
| Relations |
| BioSample |
SAMN21920800 |
| SRA |
SRX12418825 |
