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FASTmC specifications

Information


Unique identifier OMICS_10589
Name FASTmC
Interface Web user interface
Restrictions to use None
Input format FASTQ
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Robert Schmitz

Publication for FASTmC

FASTmC citations

 (3)
library_books

Epigenomic diversification within the genus Lupinus

2017
PLoS One
PMCID: 5480990
PMID: 28640886
DOI: 10.1371/journal.pone.0179821

[…] DNA was isolated from leaf tissue and MethylC-seq libraries were prepared for each species as was previously described [, ]. As no sequenced and assembled genome exists for Lupinus spp., we used FASTmC, which is a non-reference-based approach to estimate the levels of DNA methylation in the CG, CHG (H = A|C|T) and CHH sequence contexts []. Briefly, linear models were created for each sequence […]

library_books

Evolution of DNA Methylation across Insects

2016
Mol Biol Evol
PMCID: 5400375
PMID: 28025279
DOI: 10.1093/molbev/msw264

[…] ast squares (PGLS) was used to correlate continuously categorized estimates of DNA methylation generated through WGBS and alignment to reference assemblies (methylpy), or nonreferenced based methods (FASTmC) to discretely coded social traits (eusocial, subsocial, communal, and solitary). BEAST 2 () was used to estimate a multilocus coalescent tree, which was used to control for relatedness of spec […]

library_books

A Comparative Analysis of 5 Azacytidine and Zebularine Induced DNA Demethylation

2016
PMCID: 5015934
PMID: 27402357
DOI: 10.1534/g3.116.030262

[…] oncentration and methylation loss was less highly correlated (AZA r2= 0.65; ZEB r2 = 0.61). A second replicate of seedlings treated with 100 ┬ÁM AZA and ZEB using low coverage sequencing combined with FASTmC analysis confirmed the genome-wide loss of DNA methylation (see Materials and Methods) (Table S3). Although this technique is less sensitive, it also shows a concentration-dependent decrease in […]

Citations

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FASTmC institution(s)
Department of Genetics, University of Georgia, Athens, GA, USA
FASTmC funding source(s)
The National Science Foundation (MCB-1339194); the National Institutes of Health (R00GM100000)

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