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Series GSE68860 Query DataSets for GSE68860
Status Public on Sep 01, 2017
Title Genome-wide single-molecule sequencing of 6-methyladenine in eukaryotes
Organisms Chlamydomonas reinhardtii; Arabidopsis thaliana; Saccharomyces cerevisiae; Caenorhabditis elegans; Drosophila melanogaster; Nannochloropsis oceanica; Auricularia delicata
Experiment type Methylation profiling by high throughput sequencing
Third-party reanalysis
Summary Mapping 6mA at single-base resolution across multiple eukaryotic genomes reveals its genomic distribution patterns, indicating a function in transcriptional regulation.
 
Overall design Using genome-wide methylation detection by single-molecule sequencing, we mapped 6mA at single-base resolution in seven eukaryotic species including the model plant Arabidopsis thaliana, the green alga Chlamydomonas reinhardtii, the marine alga Nannochloropsis oceanica, and the wood-degrading fungus Auricularia delicata. We also performed methylation mapping of publicly available raw SMRT sequencing data from two animal models, Drosophila melanogaster and Caenorhabditis elegans, and budding yeast, Saccharomyces cerevisiae.
 
Contributor(s) Wei C, Ngan CY, Tolkunov D
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date May 13, 2015
Last update date May 15, 2019
Contact name Denis Tolkunov
Organization name DOE Joint Genome Institute
Street address 2800 Mitchell Dr
City Walnut Creek
State/province CA
ZIP/Postal code 94598
Country USA
 
Platforms (8)
GPL18482 Illumina HiSeq 2500 (Chlamydomonas reinhardtii)
GPL19919 PacBio RS II (Caenorhabditis elegans)
GPL20195 PacBio RS II (Chlamydomonas reinhardtii)
Samples (11)
GSM1684587 Chlamydomonas reinhardtii, replicate 1 (4A+, log phase)
GSM1684588 Chlamydomonas reinhardtii, replicate 2 (4A+, log phase)
GSM1684589 Chlamydomonas reinhardtii, replicate 3 (4A+, log phase)
Relations
BioProject PRJNA283916
SRA SRP058325

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
GSE68860_Chlamy.modifications.48H.Rep1and2.csv.gz 2.8 Gb (ftp)(http) CSV
GSE68860_Chlamy.modifications.48H.Rep1and2.gff.gz 32.1 Mb (ftp)(http) GFF
GSE68860_Chlamy.modifications.WT.Rep1and2.csv.gz 2.8 Gb (ftp)(http) CSV
GSE68860_Chlamy.modifications.WT.Rep1and2.gff.gz 27.3 Mb (ftp)(http) GFF
GSE68860_RAW.tar 12.8 Gb (http)(custom) TAR (of BW, CSV, GFF)
SRA Run SelectorHelp
Processed data provided as supplementary file
Processed data are available on Series record
Raw data are available in SRA

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