|
| Status |
Public on Mar 16, 2017 |
| Title |
Nepenthes bicalcarata replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
genomic DNA
|
| Organism |
Nepenthes bicalcarata |
| Characteristics |
tissue: leaf
genotype: Wild-type
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated using a Qiagen Plant DNeasy 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 |
WQUF-SOAPdenovo-Trans-assembly.fa
processed data file: allc_Nepenthes_bicalcarata.tsv
MethylC–seq
|
| Data processing |
Data was mapped to transcriptome assemblies of each species. If a species did not have an assembled transcriptome, a closely related species (i.e., within same genus) was used.
MethylC-seq analysis were performed as described in Schmitz et al. (2013; Genome Research).
Genome_build: At the time of submission, the assembled transcriptomes used for read alignment were not publicly available. The submitter states that the transcriptomes will be made available upon release of the 1KP capstone paper. www.onekp.com
Supplementary_files_format_and_content: Tab delimited text file. Please see metafile for column headers. The text files with the processed data are available in a tar archive on the series record.
|
| |
|
| Submission date |
May 20, 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 |
GPL21912 |
| Series (1) |
| GSE81702 |
The evolution of CHROMOMETHYLTRANSFERASES and gene body DNA methylation in plants |
|
| Relations |
| BioSample |
SAMN05157147 |
| SRA |
SRX1787417 |
