About: A Novel Construction of Genome Space with Biological Geometry

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An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	A Novel Construction of Genome Space with Biological Geometry
Creator	Yin, Changchuan Liang, Qian He, Rong Yau, -T Chenglong, Yu
Source	Medline; PMC
abstract	A genome space is a moduli space of genomes. In this space, each point corresponds to a genome. The natural distance between two points in the genome space reflects the biological distance between these two genomes. Currently, there is no method to represent genomes by a point in a space without losing biological information. Here, we propose a new graphical representation for DNA sequences. The breakthrough of the subject is that we can construct the moment vectors from DNA sequences using this new graphical method and prove that the correspondence between moment vectors and DNA sequences is one-to-one. Using these moment vectors, we have constructed a novel genome space as a subspace in R(N). It allows us to show that the SARS-CoV is most closely related to a coronavirus from the palm civet not from a bird as initially suspected, and the newly discovered human coronavirus HCoV-HKU1 is more closely related to SARS than to any other known member of group 2 coronavirus. Furthermore, we reconstructed the phylogenetic tree for 34 lentiviruses (including human immunodeficiency virus) based on their whole genome sequences. Our genome space will provide a new powerful tool for analyzing the classification of genomes and their phylogenetic relationships.
has issue date	2010-04-01(xsd:dateTime)
bibo:doi	10.1093/dnares/dsq008
bibo:pmid	20360268
has license	cc-by-nc
sha1sum (hex)	93dae518889d2a93960963fa3e99158f58738eda
schema:url	https://doi.org/10.1093/dnares/dsq008
resource representing a document's title	A Novel Construction of Genome Space with Biological Geometry
has PubMed Central identifier	PMC2885272
has PubMed identifier	20360268
schema:publication	DNA Res
resource representing a document's body	covid:93dae518889d2a93960963fa3e99158f58738eda#body_text
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