|
| Status |
Public on Oct 26, 2022 |
| Title |
Chickpea Pedicel |
| Sample type |
SRA |
| |
|
| Source name |
Mature plant
|
| Organism |
Cicer arietinum |
| Characteristics |
genotype: ICC4958
tissue: Pedicel
|
| Treatment protocol |
Different tissues/organs were harvested from vegetative and reproductive stages.
|
| Growth protocol |
Plants were grown in the culture room/greenhouse or under the field conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tissue samples were collected and frozen in liquid nitrogen. Total RNA was isolated using TRI reagent from Sigma.
Libraries were prepared using True-Seq Sample Prep kit (Illumina) according to the manufacture’s protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Low-quality reads and reads containg adaptor/primer contamination were filtered using NGS QC Toolkit v2.3
Fragments per exon kilobase per million (FPKM) value was calculated for all the genes in each tissue sample
Genome_build: Kabuli chickpea genome (v1.0; Varshney et al., 2013)
Supplementary_files_format_and_content: tab delimited text files include FPKM values for each sample
|
| |
|
| Submission date |
Mar 31, 2020 |
| Last update date |
Oct 26, 2022 |
| Contact name |
Mukesh Jain |
| Phone |
91-11-26704686
|
| Organization name |
Jawaharlal Nehru University
|
| Street address |
New Mehrauli Road
|
| City |
New Delhi |
| State/province |
New Delhi |
| ZIP/Postal code |
110067 |
| Country |
India |
| |
|
| Platform ID |
GPL20619 |
| Series (1) |
| GSE147831 |
Expression atlas of chickpea during development |
|
| Relations |
| BioSample |
SAMN14501787 |
| SRA |
SRX8036581 |
