|
| Status |
Public on Jul 08, 2020 |
| Title |
maize_ligular_region_mRNA_SEQ_N18_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
ligular region
|
| Organism |
Zea mays |
| Characteristics |
tissue: developing ligular region of leaf8 and leaf9
developmental stage: V7
cultivar: N18
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the samples using a Plant RNA Isolation Kit (Waryong, China) according to the manufacturer’s instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
ligular_region_mRNA_Seq.xls
|
| Data processing |
Basecalls performed using CASAVA version 1.8
Raw reads analyzed using Bcl2Fastq
Raw data can be filtered according to NEBNext Ultra RNA Library Prep Kit. The RNA 5' Adapter AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCT; the RNA 3' Adapter GATCGGAAGAGCACACGTCTGAACTCCAGTCACATCACGATCTCGTATGCCGTCTTCTGCTTG
Clean data were mapped to the maize genome with TopHat (V2.1.0)
The Cufflinks package was used to assemble transcripts, compare and merge assembles, and identify differentially expressed genes (DEGs).
Genome_build: Zea mays B73 RefGen_v3
Supplementary_files_format_and_content: log2(fold_change（Sdw3/N18)
|
| |
|
| Submission date |
Feb 28, 2019 |
| Last update date |
Jul 08, 2020 |
| Contact name |
Hongchao Li |
| E-mail(s) |
[email protected]
|
| Organization name |
China Agricultural University
|
| Department |
Crop Genetics and Breeding
|
| Lab |
Weiwei Jin
|
| Street address |
No.2 Yuanmingyuan West Road
|
| City |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
| |
|
| Platform ID |
GPL24163 |
| Series (1) |
| GSE127448 |
Transcriptome sequencing of the developing internode and ligular region of maize mutant Sdw3 |
|
| Relations |
| BioSample |
SAMN11032942 |
| SRA |
SRX5443979 |
