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Series GSE153055 Query DataSets for GSE153055
Status Public on Aug 21, 2020
Title AlphaBeta: Computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants
Organism Arabidopsis thaliana
Experiment type Methylation profiling by high throughput sequencing
Summary Heritable changes in cytosine methylation can arise stochastically in plant genomes independently of DNA sequence alterations. These so-called ‘spontaneous epimutations’ appear to be abyproduct of imperfect DNA methylation maintenance during mitotic or meitotic cell divisions. Accurate estimates of the rate and spectrum of these stochastic events are necessary to be able to quantify how epimutational processes shape methylome diversity in the context of plant evolution, development and aging.
Overall design We created two lineages of mutation accumluation lines for Col-0 that were propagated by single seed descent growth for the indicated number of generations (G#). No replicates are possible in the designed experiment, although independent lineages do serve as a form of replication.
Contributor(s) Schmitz RJ
Citation(s) 33023650
Submission date Jun 23, 2020
Last update date Oct 13, 2020
Contact name Robert J Schmitz
Organization name University of Georgia
Department Genetics
Street address B416 Davison Life Sciences
City Athens
State/province GA
ZIP/Postal code 30602
Country USA
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (13)
GSM4633592 Arabidopsis_WT_G0 (WGBS)
GSM4633593 Arabidopsis_WT_L1_G1 (WGBS)
GSM4633594 Arabidopsis_WT_L1_G2 (WGBS)
BioProject PRJNA641352
SRA SRP268461

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
GSE153055_RAW.tar 1.6 Gb (http)(custom) TAR (of TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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