NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE173212 Query DataSets for GSE173212
Status Public on Jun 30, 2023
Title Comprehensive characterization of cistrome and epicistrome involved in fruit ripening [Bisulfite-seq]
Organism Solanum lycopersicum
Experiment type Methylation profiling by high throughput sequencing
Summary The biggest advantage of DAP-seq is that it’s capable of measuring the influence of DNA methylation on TF binding, without disturbing of other epigenetic markers. Here, by utilizing DNA affinity purification sequencing, we generated two binding sets which were incubated with DNA libraries that representing methylomes in different developmental stage. And we made the most of our data to predict DNA methylation impact on TF binding in two dimensions: prediction by comparing genome-wide binding signal in motif-matched regions with or without methylation in single stage, and prediction by comparing binding signal variation in motif-matched regions with or without methylation variation.
 
Overall design Bisulfite sequencing (BS-Seq) data of tomato fruit extracted in 26 DPA and 38 DPA.
 
Contributor(s) Lang Z
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Apr 23, 2021
Last update date Jun 30, 2023
Contact name Yu Ma
E-mail(s) yuma@psc.ac.cn
Organization name Shanghai Center for Plant Stress Biology
Street address Address: No. 3888 Chenhua Road, Shanghai 201602, P. R. China
City Shanghai
ZIP/Postal code 201602
Country China
 
Platforms (1)
GPL29032 NextSeq 550 (Solanum lycopersicum)
Samples (2)
GSM5261940 AC Red
GSM5261941 AC Green
This SubSeries is part of SuperSeries:
GSE173213 Comprehensive characterization of cistrome and epicistrome involved in fruit ripening
Relations
BioProject PRJNA724699
SRA SRP316058

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE173212_RAW.tar 3.5 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap