|
| Status |
Public on Dec 30, 2023 |
| Title |
S3 |
| Sample type |
SRA |
| |
|
| Source name |
cotyledon
|
| Organism |
Brassica napus |
| Characteristics |
tissue: cotyledon
genotype: mutant
treatment: growth in 1/2MS medium addition 1% suc in dark for 4D, and then transferred to normal condition for 6h.
|
| Treatment protocol |
under dark for 4D, and then transferred to normal condition for 6h.
|
| Growth protocol |
growth in 1/2MS medium addition 1% suc
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Toal RNA was extracted by using Eastep® Super Total RNA Extraction Kit (Promega) from cotyledon with three replications
mRNAs with polyA tails were enriched by Oligo(dT) magnetic beads, and mRNAs were obtained by removing ribosomal RNAs from the total RNAs.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Brassica_napus.ZS11.v0.genome.fa
Raw reads were processed using fastp.
Reads were aligned to brassica napus reference genome （Brassica_napus.ZS11.v0.genome.fa）using hisat2.
FeatureCounts was used to count the number of paired mapping reads for each gene.
Assembly: Brassica_napus.ZS11.v0.genome.fa
Supplementary files format and content: tab-delimited text file includes raw counts for each Sample
|
| |
|
| Submission date |
Dec 26, 2023 |
| Last update date |
Dec 30, 2023 |
| Contact name |
Junlin Chen |
| E-mail(s) |
[email protected]
|
| Phone |
+8618943024619
|
| Organization name |
Huazhong Agricultural University
|
| Lab |
National Key Laboratory of Crop Genetic Improvement
|
| Street address |
No.1, Shizishan Street
|
| City |
Wuhan |
| ZIP/Postal code |
430070 |
| Country |
China |
| |
|
| Platform ID |
GPL26378 |
| Series (1) |
| GSE252072 |
bnsdp1 impaired seedling growth, especially in yellowed seedlings |
|
| Relations |
| BioSample |
SAMN39128045 |
| SRA |
SRX23029018 |
