Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs.
Sign Up to like & getrecommendations! Published in 2021 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btab749
Abstract: MOTIVATION With the increasing throughput of sequencing technologies, structural variant (SV) detection has become possible across tens of thousands of genomes. Non-reference sequence (NRS) variants have drawn less attention compared to other types of SVs… read more here.
Keywords: nrs variants; detection; reference sequence; using colored ... See more keywords
Efficient detection and assembly of non-reference DNA sequences with synthetic long reads
Sign Up to like & getrecommendations! Published in 2022 at "Nucleic Acids Research"
DOI: 10.1093/nar/gkac653
Abstract: Abstract Recent pan-genome studies have revealed an abundance of DNA sequences in human genomes that are not present in the reference genome. A lion’s share of these non-reference sequences (NRSs) cannot be reliably assembled or… read more here.
Keywords: dna; reference; synthetic long; non reference ... See more keywords
Non-reference genome transposable elements (TEs) have a significant impact on the progression of the Parkinson’s disease
Sign Up to like & getrecommendations! Published in 2022 at "Experimental Biology and Medicine"
DOI: 10.1177/15353702221117147
Abstract: The pathophysiology of Parkinson’s disease (PD) is a complex process of the interaction between genetic and environmental factors. Studies on the genetic component of PD have predominantly focused on single nucleotide polymorphisms (SNPs) using a… read more here.
Keywords: reference; progression; parkinson disease; reference genome ... See more keywords
Genetic Diversity of Brucella Reference and Non-reference Phages and Its Impact on Brucella-Typing
Sign Up to like & getrecommendations! Published in 2017 at "Frontiers in Microbiology"
DOI: 10.3389/fmicb.2017.00408
Abstract: Virulent phages have been used for many years to type Brucella isolates, but until recently knowledge about the genetic makeup of these phages remains limited. In this work the host specificity and genomic sequences of… read more here.
Keywords: brucella; reference phages; reference; brucella reference ... See more keywords
Identification of Heat-Tolerant Genes in Non-Reference Sequences in Rice by Integrating Pan-Genome, Transcriptomics, and QTLs
Sign Up to like & getrecommendations! Published in 2022 at "Genes"
DOI: 10.3390/genes13081353
Abstract: The availability of large-scale genomic data resources makes it very convenient to mine and analyze genes that are related to important agricultural traits in rice. Pan-genomes have been constructed to provide insight into the genome… read more here.
Keywords: heat stress; pan genome; non reference; rice ... See more keywords