|
| Status |
Public on Aug 17, 2016 |
| Title |
FASTmC: predictive models for non-reference-based estimations of DNA methylation |
| Organisms |
Populus trichocarpa; Brassica oleracea; Erythranthe guttata; Sorghum bicolor; Brachypodium distachyon |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
We describe a suite of predictive models, coined FASTmC, for non-reference, cost-effective exploration and comparative analysis of context-specific DNA methylation levels. Accurate estimations of true DNA methylation levels can be obtained from as few as several thousand short-reads generated from whole genome bisulfite sequencing. Our models make high-resolution time course or developmental, and large diversity studies practical regardless of species, genome size and availability of a reference genome.
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| |
|
| Overall design |
MethylC-Seq data collected from genomic DNA extracted from leaf tissue.
|
| |
|
| Contributor(s) |
Schmitz RJ |
| Citation(s) |
26681520 |
| |
| Submission date |
Aug 18, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Adam James Bewick |
| E-mail(s) |
bewickaj@uga.edu
|
| Organization name |
University of Georgia
|
| Department |
Genetics
|
| Lab |
Schmitz
|
| Street address |
120 East Green Street
|
| City |
Athens |
| State/province |
GA |
| ZIP/Postal code |
30605 |
| Country |
USA |
| |
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| Platforms (5)
|
| GPL16360 |
Illumina HiSeq 2000 (Brassica oleracea) |
| GPL17337 |
Illumina HiSeq 2000 (Brachypodium distachyon) |
| GPL17415 |
Illumina HiSeq 2000 (Populus trichocarpa) |
| GPL20816 |
Illumina HiSeq 2000 (Erythranthe guttata) |
| GPL20818 |
Illumina HiSeq 2000 (Sorghum bicolor) |
|
| Samples (5)
|
|
| Relations |
| BioProject |
PRJNA293211 |
| SRA |
SRP062556 |
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