About: Significant non-existence of sequences in genomes and proteomes

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

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Significant non-existence of sequences in genomes and proteomes
Creator	Frith, Martin Koulouras, Grigorios
source	BioRxiv
abstract	Nullomers are minimal-length oligomers absent from a genome or proteome. Although research has shown that artificially synthesized nullomers have deleterious effects, there is still a lack of a strategy for the prioritisation and classification of non-occurring sequences as potentially malicious or benign. In this work, by using Markovian models with multiple-testing correction, we reveal significant absent oligomers which are statistically expected to exist. This strongly suggests that their absence is due to negative selection. We survey genomes and proteomes covering the diversity of life, and find thousands of significant absent sequences. Common significant nullomers are often mono- or dinucleotide tracts, or palindromic. Significant viral nullomers are often restriction sites, and may indicate unknown restriction motifs. Surprisingly, significant mammal genome nullomers are often present, but rare, in other mammals, suggesting that they are suppressed but not completely forbidden. Significant human nullomers are rarely present in human viruses, indicating viral mimicry of the host. More than 1/4 of human proteins are one substitution away from containing a significant nullomer. We provide a web-based, interactive database of significant nullomers across genomes and proteomes.
has issue date	2020-06-25(xsd:dateTime)
bibo:doi	10.1101/2020.06.25.170431
has license	biorxiv
sha1sum (hex)	0700f7e0900668d65915b997966732ac5b35de05
schema:url	https://doi.org/10.1101/2020.06.25.170431
resource representing a document's title	Significant non-existence of sequences in genomes and proteomes
schema:publication	bioRxiv
resource representing a document's body	covid:0700f7e0900668d65915b997966732ac5b35de05#body_text
is schema:about of	named entity 'rare' named entity 'genome' named entity 'This' named entity 'covering' named entity 'SUPPRESSED' »more»

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