Inferring chromosome radial organization from Hi-C data
نویسندگان
چکیده
منابع مشابه
3D chromosome rendering from Hi-C data using virtual reality
Most genome browsers display DNA linearly, using single-dimensional depictions that are useful to examine certain epigenetic mechanisms such as DNA methylation. However, these representations are insufficient to visualize intrachromosomal interactions and relationships between distal genome features. Relationships between DNA regions may be difficult to decipher or missed entirely if those regi...
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The three-dimensional conformation of chromosomes in the nucleus is important for many cellular processes, including the regulation of gene expression, DNA replication, and chromatin structure [1]. Despite having the entire sequence of the genome, very little has been understood about three-dimensional chromosome conformation beyond the scale of the nucleosome. However, recent advances in molec...
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Motivation Recent experiments have provided Hi-C data at resolution as high as 1 kbp. However, 3D structural inference from high-resolution Hi-C datasets is often computationally unfeasible using existing methods. Results We have developed miniMDS, an approximation of multidimensional scaling (MDS) that partitions a Hi-C dataset, performs high-resolution MDS separately on each partition, and ...
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ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2020
ISSN: 1471-2105
DOI: 10.1186/s12859-020-03841-7