DupMasker: A tool for annotating primate segmental duplications
نویسندگان
چکیده
منابع مشابه
Origins and Impacts of Primate Segmental Duplications
Duplicated sequences are substrates for the emergence of new genes and are an important source of genetic instability associated with rare and common disease. Analyses of primate genomes have shown an increase in the proportion of interspersed segmental duplications within the genomes of humans and great apes. This is in contrast to other mammalian genomes that appear to have their recently dup...
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SUMMARY Given the positions of protein-coding genes along genomic sequence and probability values for protein alignments between genes, DAGchainer identifies chains of gene pairs sharing conserved order between genomic regions, by identifying paths through a directed acyclic graph (DAG). These chains of collinear gene pairs can represent segmentally duplicated regions and genes within a single ...
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The human genome is particularly rich in low-copy repeats (LCRs) or segmental duplications (5%-10%), and this characteristic likely distinguishes us from lower mammals such as rodents. How and why the complex human genome architecture consisting of multiple LCRs has evolved remains an open question. Using molecular and computational analyses of human and primate genomic regions, we analyzed the...
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MOTIVATION Large-scale evolutionary events such as genomic rearrange.ments and segmental duplications form an important part of the evolution of genomes and are widely studied from both biological and computational perspectives. A basic computational problem is to infer these events in the evolutionary history for given modern genomes, a task for which many algorithms have been proposed under v...
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Primate-specific segmental duplications are considered important in human disease and evolution. The inability to distinguish between allelic and duplication sequence overlap has hampered their characterization as well as assembly and annotation of our genome. We developed a method whereby each public sequence is analyzed at the clone level for overrepresentation within a whole-genome shotgun s...
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ژورنال
عنوان ژورنال: Genome Research
سال: 2008
ISSN: 1088-9051
DOI: 10.1101/gr.078477.108