IntSIM: an integrated simulator of next-generation sequencing data

X Yuan, J Zhang, L Yang - IEEE Transactions on Biomedical …, 2016 - ieeexplore.ieee.org
Objective: Next-generation sequencing data has been widely used for DNA variant
discovery and tumor study through computational tools. Effective simulation of such data …

Molecular homology and multiple-sequence alignment: an analysis of concepts and practice

DA Morrison, MJ Morgan… - Australian Systematic …, 2015 - CSIRO Publishing
Sequence alignment is just as much a part of phylogenetics as is tree building, although it is
often viewed solely as a necessary tool to construct trees. However, alignment for the …

Polymorphism analysis reveals reduced negative selection and elevated rate of insertions and deletions in intrinsically disordered protein regions

T Khan, GM Douglas, P Patel… - Genome biology and …, 2015 - academic.oup.com
Intrinsically disordered protein regions are abundant in eukaryotic proteins and lack stable
tertiary structures and enzymatic functions. Previous studies of disordered region evolution …

Insertion–Deletion Events Are Depleted in Protein Regions with Predicted Secondary Structure

Y Yang, MV Braga, MD Dean - Genome Biology and Evolution, 2024 - academic.oup.com
A fundamental goal in evolutionary biology and population genetics is to understand how
selection shapes the fate of new mutations. Here, we test the null hypothesis that insertion …

[HTML][HTML] Analysis of the genetic structure of allopatric populations of Lutzomyia umbratilis using the period clock gene

MT de Souza Freitas, CM Ríos-Velasquez, LG da Silva… - Acta tropica, 2016 - Elsevier
Abstract In South America, Lutzomyia umbratilis is the main vector of Leishmania
guyanensis, one of the species involved in the transmission of American tegumentary …

Ancestral alleles in the human genome based on population sequencing data

L Park - PLoS One, 2015 - journals.plos.org
Ancestral allele information is useful for genetics studies. Previously, the identification of
ancestral alleles was primarily based on sequence alignments between species. Alternative …

Small Segmental Duplications in Drosophila—High Rate of Emergence and Elimination

J Li, L Jiang, CI Wu, X Lu, S Fang… - Genome Biology and …, 2019 - academic.oup.com
Segmental duplications are an important class of mutations. Because a large proportion of
segmental duplications may often be strongly deleterious, high frequency or fixed segmental …

Estruturação genética de populações alopátricas do complexo Lutzomyia umbratilis através de marcadores mitocondrial e nuclear

MTS FREITAS - 2018 - bdtd.ibict.br
Na América do Sul, Lutzomyia umbratilis é o principal vetor de Leishmania guyanensis, uma
das espécies envolvidas na transmissão da leishmaniose tegumentar americana. No Brasil …