|
| Status |
Public on Feb 02, 2017 |
| Title |
Pemphigus populicaulis replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
genomic DNA
|
| Organism |
Pemphigus populicaulis |
| Characteristics |
tissue: Whole animal
social behavior: Solitary
genotype: Lab colony
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated using a Qiagen Dneasy Mini kit (Qiagen, Valencia, CA) following the manufacturer’s recommendations.
Libraries were prepared following the steps provided in Urich et al. (2015; Nature Protocols)
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
processed data file: non_reference_mCG_estimates.tsv
MethylC–seq
|
| Data processing |
Data was mapped to genome assemblies of each species. If a species did not have an assembled genome, a closely related species (i.e., within same genus) was used. Alternatively, if no closely related species was available, DNA methylation levels were estimated using FASTmC (Bewick et al., 2015; G3)
MethylC-seq analysis was performed as described in Schmitz et al. (2013; Genome Research).
genome build: None
processed data files format and content: Tab delimited text file. Please see metafile.txt for column headers for allc*.tsv.bz2 processed data files. Please see metafile2.txt for column headers for non_reference_mCG_estimates.tsv. The text files with the processed data are available in a tar archive on the series record.
|
| |
|
| Submission date |
Jun 17, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Robert J Schmitz |
| E-mail(s) |
schmitz@uga.edu
|
| Organization name |
University of Georgia
|
| Department |
Genetics
|
| Street address |
B416 Davison Life Sciences
|
| City |
Athens |
| State/province |
GA |
| ZIP/Postal code |
30602 |
| Country |
USA |
| |
|
| Platform ID |
GPL22051 |
| Series (1) |
| GSE83497 |
Sociality and DNA methylation are not evolutionary dependent |
|
| Relations |
| BioSample |
SAMN05263684 |
| SRA |
SRX1865188 |
