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Independent evolution of highly variable, fragmented mitogenomes of parasitic lice
The mitochondrial genomes (mitogenomes) of bilaterian animals are highly conserved structures that usually consist of a single circular chromosome....
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Identification of highly variable sequence fragments in unmapped reads for rapid bacterial genoty**
BackgroundBacterial genoty** is a crucial process in outbreak investigation and epidemiological studies. Several ty** methods such as...
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The spatiotemporal dynamics of spatially variable genes in develo** mouse brain revealed by a novel computational scheme
To understand how brain regions form and work, it is important to explore the spatially variable genes (SVGs) enriched in specific brain regions...
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Highly perturbed genes and hub genes associated with type 2 diabetes in different tissues of adult humans: a bioinformatics analytic workflow
Type 2 diabetes (T2D) has a complex etiology which is not yet fully elucidated. The identification of gene perturbations and hub genes of T2D may...
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An Efficient and User-Friendly Software for PCR Primer Design for Detection of Highly Variable Bacteria
Objective: To design and implement a simple and highly integrated primer design software for detection of highly variable bacteria. Methods: Firstly,...
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Contribution of RdDM to the ecotype-specific differential methylation on conserved as well as highly variable regions between Arabidopsis ecotypes
BackgroundSeveral studies showed genome-wide DNA methylation during Arabidopsis embryogenesis and germination. Although it has been known that the...
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Varia: a tool for prediction, analysis and visualisation of variable genes
BackgroundParasites use polymorphic gene families to evade the immune system or interact with the host. Assessing the diversity and expression of...
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Evaluating spatially variable gene detection methods for spatial transcriptomics data
BackgroundThe identification of genes that vary across spatial domains in tissues and cells is an essential step for spatial transcriptomics data...
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A targeted bioinformatics approach identifies highly variable cell surface proteins that are unique to Glomeromycotina
Diversity in arbuscular mycorrhizal fungi (AMF) contributes to biodiversity and resilience in natural environments and healthy agricultural systems....
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Basics of the Molecular Biology: From Genes to Its Function
The discipline of molecular biology primarily delineates by unravelling the interactions between deoxyribonucleic acid, ribonucleic acid and proteins...
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Pseudomonas aeruginosa Pangenome: Core and Accessory Genes of a Highly Resourceful Opportunistic Pathogen
In this chapter, we leverage a novel approach to assess the seamless population structure of Pseudomonas aeruginosa, using the full repertoire of...
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Assembling highly repetitive Xanthomonas TALomes using Oxford Nanopore sequencing
BackgroundMost plant-pathogenic Xanthomonas bacteria harbor transcription activator-like effector (TALE) genes, which function as transcriptional...
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Disparities in spatially variable gene calling highlight the need for benchmarking spatial transcriptomics methods
Identifying spatially variable genes (SVGs) is a key step in the analysis of spatially resolved transcriptomics data. SVGs provide biological...
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Bayesian variable selection for high-dimensional data with an ordinal response: identifying genes associated with prognostic risk group in acute myeloid leukemia
BackgroundAcute myeloid leukemia (AML) is a heterogeneous cancer of the blood, though specific recurring cytogenetic abnormalities in AML are...
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Permafrost microbial communities and functional genes are structured by latitudinal and soil geochemical gradients
Permafrost underlies approximately one quarter of Northern Hemisphere terrestrial surfaces and contains 25–50% of the global soil carbon (C) pool....
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The broad impact of cell death genes on the human disease phenome
Cell death mediated by genetically defined signaling pathways influences the health and dynamics of all tissues, however the tissue specificity of...
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Gene duplication and functional divergence of new genes contributed to the polar acclimation of Antarctic green algae
Psychrophilic microalgae successfully survive in the extreme and highly variable polar ecosystems, which represent the energy base of most food webs...
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Investigation of Differential Expression of Alpha-Gliadin Genes with Variable Immunogenic Epitopes in Hexa- and Tetraploid Wheat Cultivars Suggests Some Have Lower Immunogenicity
Celiac disease (CD) is an inflammatory disorder that damages the lining of the small intestine. The allergic reaction to the alpha (α)-gliadin class...
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Crosstalk between brassinosteroid signaling and variable nutrient environments
Brassinosteroid (BR) represents a group of steroid hormones that regulate plant growth and development as well as environmental adaptation. The...
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An efficient CRISPR-Cas9 enrichment sequencing strategy for characterizing complex and highly duplicated genomic regions. A case study in the Prunus salicina LG3-MYB10 genes cluster
BackgroundGenome complexity is largely linked to diversification and crop innovation. Examples of regions with duplicated genes with relevant roles...
