About: Single-nucleotide conservation state annotation of SARS-CoV-2 genome

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About: Single-nucleotide conservation state annotation of SARS-CoV-2 genome Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Single-nucleotide conservation state annotation of SARS-CoV-2 genome
Creator	Ernst, Jason Kwon, Soo
Source	BioRxiv; Medline; PMC
abstract	Given the global impact and severity of COVID-19, there is a pressing need for a better understanding of the SARS-CoV-2 genome and mutations. Multi-strain sequence alignments of coronaviruses (CoV) provide important information for interpreting the genome and its variation. We apply a comparative genomics method, ConsHMM, to the multi-strain alignments of CoV to annotate every base of the SARS-CoV-2 genome with conservation states based on sequence alignment patterns among CoV. The learned conservation states show distinct enrichment patterns for genes, protein domains, and other regions of interest. Certain states are strongly enriched or depleted of SARS-CoV-2 mutations, and the state annotations are more predictive than existing genomic annotations in prioritizing bases without nonsingleton mutations, which are likely enriched for important genomic bases. We expect the conservation states to be a resource for interpreting the SARS-CoV-2 genome and mutations.
has issue date	2020-07-14(xsd:dateTime)
bibo:doi	10.1101/2020.07.13.201277
bibo:pmid	32699851
has license	cc-by-nc-nd
sha1sum (hex)	284dd33c72268be1de8e142fb7abaf9d37cb4b6d
schema:url	https://doi.org/10.1101/2020.07.13.201277
resource representing a document's title	Single-nucleotide conservation state annotation of SARS-CoV-2 genome
has PubMed Central identifier	PMC7373132
has PubMed identifier	32699851
schema:publication	bioRxiv
resource representing a document's body	covid:284dd33c72268be1de8e142fb7abaf9d37cb4b6d#body_text
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