|
| Status |
Public on May 05, 2024 |
| Title |
JMJ20-OE leaf ChIP-seq input, rep1 |
| Sample type |
SRA |
| |
|
| Source name |
17-day-old leaf
|
| Organism |
Glycine max |
| Characteristics |
tissue: 17-day-old leaf
cell type: somatic cells
genotype: Williams 82
antibody: none; input
|
| Growth protocol |
12 hr light/12 hr dark, 25˚C
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted from 17-day-old leaves following ChIP assay.
DNA was subjected to ChIP-seq library construction with VAHTS Universal DNA Library Prep Kit for Illumina V3 (Vazyme #ND607) and VAHTS Multiplex Oligos Set 4/5 for Illumina (Vazyme #N321)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Paired reads were trimmed by cutadapt v4.2 and then mapped to the Arabidopsis genome Wm82.a2 using Bowtie2 v2.4.5 with default parameters.
Peak calling was performed by Genrich with parameters "-r -a 200 -p 0.01".
Assembly: Wm82.a2.v1
Supplementary files format and content: bigWig files describing genome coverage of mapped reads
|
| |
|
| Submission date |
May 07, 2023 |
| Last update date |
May 05, 2024 |
| Contact name |
Chenjiang You |
| E-mail(s) |
chenjiang.you@ucr.edu, youchenjiang2003@hotmail.com
|
| Organization name |
Fudan University
|
| Street address |
2005 Songhu Rd
|
| City |
Shanghai |
| State/province |
Shanghai |
| ZIP/Postal code |
200438 |
| Country |
China |
| |
|
| Platform ID |
GPL28801 |
| Series (2) |
| GSE231884 |
Histone demethylases JMJ19 and JMJ20 interact with LUX2 to mediate flowering time and adaptation in soybean [CHIP-seq] |
| GSE231886 |
Histone demethylases JMJ19 and JMJ20 interact with LUX2 to mediate flowering time and adaptation in soybean. |
|
| Relations |
| BioSample |
SAMN34993641 |
| SRA |
SRX20249463 |
