6533b85bfe1ef96bd12bbe9b
RESEARCH PRODUCT
Applications of alignment-free methods in epigenomics
Guo-cheng YuanGiosuè Lo BoscoLuca Pinellosubject
EpigenomicsSupport Vector MachineDNA sequenceSequence alignmentComputational biologyBiologyDNA sequencingEpigenesis GeneticArtificial IntelligenceSequence comparisonHumansNucleosomeEpigeneticsMolecular BiologyGeneEpigenomicsSequence (medicine)GeneticsModels GeneticSettore INF/01 - InformaticanucleosomeChromosome MappingComputational BiologySequence Analysis DNAmachine learningPapersSequence Alignmentepigeneticalignment-free methodInformation Systemsdescription
Epigenetic mechanisms play an important role in the regulation of cell type-specific gene activities, yet how epigenetic patterns are established and maintained remains poorly understood. Recent studies have supported a role of DNA sequences in recruitment of epigenetic regulators. Alignment-free methods have been applied to identify distinct sequence features that are associated with epigenetic patterns and to predict epigenomic profiles. Here, we review recent advances in such applications, including the methods to map DNA sequence to feature space, sequence comparison and prediction models. Computational studies using these methods have provided important insights into the epigenetic regulatory mechanisms.
| year | journal | country | edition | language |
|---|---|---|---|---|
| 2013-11-06 | Briefings in Bioinformatics |