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TERT single nucleotide polymorphism rs2736098 but not rs2736100 is associated with telomere length in HIV-infected patients on cART
BackgroundContinuous application of “combination antiretroviral therapy” (cART) has transformed Human immunodeficiency virus (HIV) infection into a...
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SimSpliceEvol2: alternative splicing-aware simulation of biological sequence evolution and transcript phylogenies
BackgroundSimSpliceEvol is a tool for simulating the evolution of eukaryotic gene sequences that integrates exon-intron structure evolution as well...
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Improvement of nucleotide content of Cordyceps tenuipes by Schisandra chinensis: fermentation process optimization and application prospects
Nucleotides are important components and the main indicators for judging Cordyceps quality. In this paper, the mixed fermentation process of Schisandra...
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Genetic diversity and population structure of Iranian Beet yellows virus based on the nucleotide sequences of coat protein
Beet yellows virus (BYV), is the type member of the genus Closterovirus , transmitted by several aphid species. The aims of this study were to detect...
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Principles of Identification of Nucleotide Sequences in ISSR Marker Spectra
Abstract —An algorithm for theoretical prediction of nucleotide sequences obtained in ISSR-PCR is developed using a sequenced horse genome as an...
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A novel single nucleotide mutation of TFL1 alters the plant architecture of Gossypium arboreum through changing the pre-mRNA splicing
Key messageA single nucleotide mutation from G to A at the 201st position changed the 5′ splice site and deleted 31 amino acids in the first exon of GaTFL1...
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Crk proteins activate the Rap1 guanine nucleotide exchange factor C3G by segregated adaptor-dependent and -independent mechanisms
BackgroundC3G is a guanine nucleotide exchange factor (GEF) that activates Rap1 to promote cell adhesion. Resting C3G is autoinhibited and the GEF...
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Nucleosome recognition and DNA distortion by the Chd1 remodeler in a nucleotide-free state
Chromatin remodelers are ATP-dependent enzymes that reorganize nucleosomes within all eukaryotic genomes. Here we report a complex of the Chd1...
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Whole genome sequence analysis of shallot virus X from India reveals it to be a natural recombinant with positive selection pressure
BackgroundShallots are infected by various viruses like Onion yellow dwarf virus (OYDV), Leek yellow stripe virus (LYSV), Shallot latent virus (SLV)...
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Badnavirus sequence diversity reveals one previously uncharacterized virus associated with air yam (Dioscorea bulbifera L.) in Brazil
Dioscorea bulbifera L., commonly known as air yam, is an edible crop belonging to the botanical family Dioscoreaceae , and it has increasingly...
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plotnineSeqSuite: a Python package for visualizing sequence data using ggplot2 style
BackgroundThe visual sequence logo has been a hot area in the development of bioinformatics tools. ggseqlogo written in R language has been the most...
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Alternative Reading Frames are an Underappreciated Source of Protein Sequence Novelty
Protein-coding DNA sequences can be translated into completely different amino acid sequences if the nucleotide triplets used are shifted by a...
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Whole genome sequence analysis of equid gammaherpesvirus -2 field isolates reveals high levels of genomic diversity and recombination
BackgroundEquid gammaherpesvirus 2 (EHV2) is a gammaherpesvirus with a widespread distribution in horse populations globally. Although its pathogenic...
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Specific DNMT3C flanking sequence preferences facilitate methylation of young murine retrotransposons
The DNA methyltransferase DNMT3C appeared as a duplication of the DNMT3B gene in muroids and is required for silencing of young retrotransposons in...
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Increased Rate of Fixation of Nucleotide Substitutions in the Mitochondrial DNA of Bony Fish Species (Osteichthyes) That Originated from the Arctic or Settled through It
AbstractThe problem of differences in the rate of evolution among different animal or plant species has been intensely discussed in recent years, so...
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Finding identical sequence repeats in multiple protein sequences: An algorithm
In recent years, several experimental evidences suggest that amino acid repeats are closely linked to many disease conditions, as they have a...
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Map** protein–RNA binding in plants with individual-nucleotide-resolution UV cross-linking and immunoprecipitation (plant iCLIP2)
Despite crucial roles of RNA-binding proteins (RBPs) in plant physiology and development, methods for determining their transcriptome-wide binding...
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Single nucleotide polymorphisms in the MRFs gene family associated with growth in Nile tilapia
BackgroundMuscle occupies most of the fish body, promoting the proliferation of fish muscle fibers can facilitate rapid growth and increase the body...
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Complete genome sequence analysis of plant growth-promoting bacterium, Isoptericola sp. AK164 isolated from the rhizosphere of Avicennia marina growing at the Red Sea coast
Isoptericola sp. AK164 is a Gram-positive, aerobic bacterial genus from the family Promicromonosporaceae, isolated from the root rhizosphere of Avicenn...
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scSNV-seq: high-throughput phenoty** of single nucleotide variants by coupled single-cell genoty** and transcriptomics
CRISPR screens with single-cell transcriptomic readouts are a valuable tool to understand the effect of genetic perturbations including single...
