|
| Status |
Public on Oct 12, 2023 |
| Title |
JW1_spikelet_H3K4me3 |
| Sample type |
SRA |
| |
|
| Source name |
spikelets at booting stage (Feeke 10)
|
| Organism |
Triticum aestivum |
| Characteristics |
cultivar: JW1
tissue: spikelets at booting stage (Feeke 10)
genotype: WT
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Spikelets at booting stage (Feeke 10)were harvested and directly vacuum-infiltrated with a formaldehyde cross-linking solution for ChIP-seq. More than 10 ng of ChIP DNA extracted from each sample was used to prepare the sequencing samples.
Libraries were constructed and sequenced by Genenergy Biotechnology Co. Ltd. (Shanghai, China) and Novogene (Beijing, China). The libraries were sequenced with the HiSeq X Ten system (illumina, San Diego, California, USA) to produce 150-bp paired-end reads.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
The sequencing reads were trimmed with fastp (0.22.0).The clean reads were aligned with bwa program (version 0.7.17-r1188).Peaks were called using MACS v1.4.2 with "--nolambda --nomodel --gsize=1500000000" parameters.
Assembly: IWGSC RefSeq v1.0
Supplementary files format and content: bed(peak)
|
| |
|
| Submission date |
Jun 16, 2023 |
| Last update date |
Oct 12, 2023 |
| Contact name |
yijing zhang |
| E-mail(s) |
zhangyijing@fudan.edu.cn
|
| Organization name |
Fudan University
|
| Department |
Biochemistry
|
| Lab |
Functional Epigenomics Group
|
| Street address |
2005 Songhu Road
|
| City |
shanghai |
| ZIP/Postal code |
200438 |
| Country |
China |
| |
|
| Platform ID |
GPL30963 |
| Series (1) |
| GSE198284 |
Subgenome-specific usage of transposable element-derived promoters and enhancers in bread wheat development |
|
| Relations |
| BioSample |
SAMN35778821 |
| SRA |
SRX20711553 |
