|
| Status |
Public on Jan 09, 2023 |
| Title |
ADA2A-GFP, IP, rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Arabidopsis seedlings
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
tissue: seedlings
tag: GFP
chip antibody: anti-GFP (Abcam, ab290)
|
| Treatment protocol |
none
|
| Growth protocol |
The Arabidopsis seedlings were grown on MS (Murashige and Skoog) medium plates with a 16 h light/8 h dark photoperiod at 22°C.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Arabidopsis seedlings were corss-linked by 1% formaldehyde. Chromatin were clarified from sonicated nuclei and were isolated with GFP or H3K9Ac antibodies.
Libraries were built for ChIP-seq (Illumina Novaseq 6000; 150-bp pair-end sequencing)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Basecalling performed using bcl2fastq.
The clean reads were aligned to Arabidopsis genome (TAIR10) using Bowtie2.
MACS2 was used to identify GFP ChIP-enriched peaks. SICER2 was used to identify H3K9Ac ChIP-enriched peaks.
Assembly: TAIR10
Supplementary files format and content: bigWig files were generated using bamCoverage.
|
| |
|
| Submission date |
Mar 30, 2022 |
| Last update date |
Jan 09, 2023 |
| Contact name |
xinjian He |
| E-mail(s) |
hexinjian@nibs.ac.cn
|
| Organization name |
National Institute of Biological Sciences
|
| Lab |
hexinjian
|
| Street address |
No. 7, zhongguancun life science park road, changping district
|
| City |
Beijing |
| ZIP/Postal code |
102206 |
| Country |
China |
| |
|
| Platform ID |
GPL26208 |
| Series (2) |
| GSE199757 |
Conserved and plant-specific GCN5-containing complexes cooperate to regulate gene transcription and plant development [ChIP-Seq] |
| GSE199761 |
Conserved and plant-specific GCN5-containing complexes cooperate to regulate gene transcription and plant development |
|
| Relations |
| BioSample |
SAMN27097914 |
| SRA |
SRX14664338 |
