|
| Status |
Public on Oct 23, 2021 |
| Title |
LB5 |
| Sample type |
SRA |
| |
|
| Source name |
Gossypium hirsutum 5 DPA
|
| Organism |
Gossypium hirsutum |
| Characteristics |
developmental stage: 5 DPA
tissue: fiber
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was treated with RQ1 DNase (Promega) to remove DNA. The quality and quantity of the purified RNA were determined by measuring the absorbance at A260/A280 and A260/A230 using smartspec plus (BioRad)
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina Casava1.5 software used for basecalling.
3' adapter(TTAGATCAG) trimmed with cutadapt -e 0.12 -O 6 --trimmed-only -m 15 -M 25
mapped using bowtie2 -t -N 1 -p 24
detecting different expression gene using edgeR
Genome_build: Gossypium_hirsutum_v1.1
Supplementary_files_format_and_content: tab-delimited text files include gene RPKM values for each Sample
|
| |
|
| Submission date |
Feb 21, 2017 |
| Last update date |
Oct 23, 2021 |
| Contact name |
dong chen |
| Organization name |
ablife
|
| Street address |
GaoXin 2nd Road
|
| City |
wuhan |
| State/province |
Hubei |
| ZIP/Postal code |
430064 |
| Country |
China |
| |
|
| Platform ID |
GPL16485 |
| Series (1) |
| GSE95146 |
A genome-wide analysis of expression differences during fiber initiation between Gossypium hirsutum and Gossypium barbadense |
|
| Relations |
| BioSample |
SAMN06361565 |
| SRA |
SRX2581068 |
