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Prediction of metabolites associated with somatic mutations in cancers by using genome-scale metabolic models and mutation data
BackgroundOncometabolites, often generated as a result of a gene mutation, show pro-oncogenic function when abnormally accumulated in cancer cells....
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Personalized genome assembly for accurate cancer somatic mutation discovery using tumor-normal paired reference samples
BackgroundThe use of a personalized haplotype-specific genome assembly, rather than an unrelated, mosaic genome like GRCh38, as a reference for...
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Genome-wide map** of somatic mutation rates uncovers drivers of cancer
Identification of cancer driver mutations that confer a proliferative advantage is central to understanding cancer; however, searches have often been...
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Mitochondrial haplotype and mito-nuclear matching drive somatic mutation and selection throughout ageing
Mitochondrial genomes co-evolve with the nuclear genome over evolutionary timescales and are shaped by selection in the female germline. Here we...
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Analyzing somatic mutations by single-cell whole-genome sequencing
Somatic mutations are the cause of cancer and have been implicated in other, noncancerous diseases and aging. While clonally expanded mutations can...
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Reconstructing phylogenetic trees from genome-wide somatic mutations in clonal samples
Phylogenetic trees are a powerful means to display the evolutionary history of species, pathogens and, more recently, individual cells of the human...
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Comprehensive genomic profiling of breast cancers characterizes germline-somatic mutation interactions mediating therapeutic vulnerabilities
Germline-somatic mutation interactions are universal and associated with tumorigenesis, but their role in breast cancer, especially in...
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Genome-Wide Expression Analysis of Genes Involved in Somatic Embryogenesis
Genome-wide expression analysis is an important tool for identifying and analysing genes involved in various biological processes, including cell...
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Somatic mutations in aging and disease
Time always leaves its mark, and our genome is no exception. Mutations in the genome of somatic cells were first hypothesized to be the cause of...
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Experimental Approaches to Study Somatic Transposition in Drosophila Using Whole-Genome DNA Sequencing
The extent of transposable element (TE) mobilization in different somatic tissues and throughout diverse species is not well understood. Somatic...
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A recurrent somatic missense mutation in GNAS gene identified in familial thyroid follicular cell carcinomas in German longhaired pointer dogs
BackgroundWe previously reported a familial thyroid follicular cell carcinoma (FCC) in a large number of Dutch German longhaired pointers and...
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Mutagenesis in Somatic Cell and Tissue
Mutagenesis in somatic cells and tissues of the plant is a common phenomenon that is ultimately passed on to the gametes and subsequently to the next...
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Persistence of parental age effect on somatic mutation rates across generations in Arabidopsis
In the model plant Arabidopsis thaliana , parental age is known to affect somatic mutation rates in their immediate progeny and here we show that this...
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LUSTR: a new customizable tool for calling genome-wide germline and somatic short tandem repeat variants
BackgroundShort tandem repeats (STRs) are widely distributed across the human genome and are associated with numerous neurological disorders....
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The Brassica juncea Genome
This book is the first comprehensive compilation of deliberations on elucidation and augmentation of the genome of Brassica juncea, one of the...
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On the distribution and diversity of tissue-specific somatic mutations in honey bee (Apis mellifera) drones
Somatic mutations originate from both exogenous (e.g. UV radiation, chemical agents) and endogenous (e.g., DNA replication, defective DNA repair)...
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A Comparative Analysis of Mitochondrial Genome Mutation Spectra in Human Populations
Abstract —Nucleotide sequence variability of whole mitochondrial genomes (mtDNA) was analyzed and mutation spectra were reconstructed (by L-chain of...
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A somatic genetic clock for clonal species
Age and longevity are key parameters for demography and life-history evolution of organisms. In clonal species, a widespread life history among...
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Identifying Somatic Mitochondrial DNA Mutations
Mitochondria are cellular organelles that play an essential role in eukaryotes, producing the energy needed for a cell to survive. Beyond the ~3.2 Gb...
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Genome Editing in Pigs
The generation of genetically engineered (GE) pigs for disease modeling and xenotransplantation has been massively facilitated by the discovery of...