Sentence examples for based on methylation pattern from inspiring English sources
An approach based on methylation pattern comparisons can potentially infer ancestral relationships between human crypts.
The promoter region is defined as going from -1kb of the TSS to +2kb of the TSS, based on methylation pattern observed in this region.
Previous studies in melanoma and surrogate samples have revealed epigenetic markers based on methylation patterns of LINE-1 [ 33, 34], RASSF1A [ 35], TSLC1 [ 36],and MGMT [ 37].
Among the 413 participants for whom DNA methylation data were generated, we excluded 6 samples for which the reported sex of the participant did not correspond with predicted sex based on methylation patterns of the X and Y chromosomes, and 7 samples with > 5% of CpGs either containing missing values or having p for detection > 0.05.
These observations suggest that the functional relevance of promoter methylation can be predicted even before carrying out quantitative reverse transcriptase PCR, based only on methylation patterns.
To investigate the relationship between repeat element methylation and gene-associated methylation, we clustered the 26,486 autosomal CpG loci interrogated on the Infinium HumanMethylation27 BeadArray into 16 methylation classes based on their methylation pattern using an RPMM [for the heat map of the 16 classes, see Supplemental Material, Figure 1 (http://dx.doi.org/10.1289/ehp.1103927)].
Using a data-driven recursively partitioned mixture model (RPMM), these CpG loci were clustered into 16 methylation classes based on like methylation pattern obtained from the array results, pruning the model after four splits to maintain power (Houseman et al. 2008).
These do not demonstrate a consistent pattern, suggesting around 3-4 sub-types based on mRNA profiling but a larger number of sub-types based on methylation profiling.
Two additional filters are based on methylation rates.
A smoking score based on methylation profile was constructed.
Nonetheless, it is not clear whether the tissue-specific signatures can be identified from methylation data such that tissues can be classified based on DNA methylation pattern.
