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Article
Open AccessHaploCoV: unsupervised classification and rapid detection of novel emerging variants of SARS-CoV-2
Accurate and timely monitoring of the evolution of SARS-CoV-2 is crucial for identifying and tracking potentially more transmissible/virulent viral variants, and implement mitigation strategies to limit their ...
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Article
Open AccessComplete vertebrate mitogenomes reveal widespread repeats and gene duplications
Modern sequencing technologies should make the assembly of the relatively small mitochondrial genomes an easy undertaking. However, few tools exist that address mitochondrial assembly directly.
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Article
Open AccessWhole transcriptome profiling of Late-Onset Alzheimer’s Disease patients provides insights into the molecular changes involved in the disease
Alzheimer’s Disease (AD) is the most common cause of dementia affecting the elderly population worldwide. We have performed a comprehensive transcriptome profiling of Late-Onset AD (LOAD) patients using second...
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Article
Open AccessMassive transcriptome sequencing of human spinal cord tissues provides new insights into motor neuron degeneration in ALS
ALS is a devastating and debilitating human disease characterized by the progressive death of upper and lower motor neurons. Although much effort has been made to elucidate molecular determinants underlying th...
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Article
Open AccessThe high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution
The International Peach Genome Initiative reports the high quality draft genome sequence of peach (Prunus persica). They also resequenced ten additional P. persica accessions, as well as those of Prunus ferganens...
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Article
Open AccessAssessment of orthologous splicing isoforms in human and mouse orthologous genes
Recent discoveries have highlighted the fact that alternative splicing and alternative transcripts are the rule, rather than the exception, in metazoan genes. Since multiple transcript and protein variants exp...
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Article
Open AccessErratum to: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
The version of this article published in BMC Genomics 2009, 10: 558, contains data in Table 1 which are now known to be unreliable, and an illustration, in Figure 1, of unusual miRNA processing events predicted b...
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Article
Open AccessHigh throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera
MicroRNAs are short (~21 base) single stranded RNAs that, in plants, are generally coded by specific genes and cleaved specifically from hairpin precursors. MicroRNAs are critical for the regulation of multipl...
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Article
Open AccessAccurate discrimination of conserved coding and non-coding regions through multiple indicators of evolutionary dynamics
The conservation of sequences between related genomes has long been recognised as an indication of functional significance and recognition of sequence homology is one of the principal approaches used in the an...
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Article
Open AccessStatistical assessment of discriminative features for protein-coding and non coding cross-species conserved sequence elements
The identification of protein coding elements in sets of mammalian conserved elements is one of the major challenges in the current molecular biology research. Many features have been proposed for automaticall...
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Article
Open AccessPhylogenetic analyses suggest multiple changes of substrate specificity within the Glycosyl hydrolase 20 family
Beta-N-acetylhexosaminidases belonging to the glycosyl hydrolase 20 (GH20) family are involved in the removal of terminal β-glycosidacally linked N-acetylhexosamine residues. These enzymes, widely distributed ...
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Article
Open AccessA genomic survey of the fish parasite Spironucleus salmonicida indicates genomic plasticity among diplomonads and significant lateral gene transfer in eukaryote genome evolution
Comparative genomic studies of the mitochondrion-lacking protist group Diplomonadida (diplomonads) has been lacking, although Giardia lamblia has been intensively studied. We have performed a sequence survey proj...
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Article
Open AccessPhylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus
Phylogenetic relationships between Lagomorpha, Rodentia and Primates and their allies (Euarchontoglires) have long been debated. While it is now generally agreed that Rodentia constitutes a monophyletic sister...
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Iron-Sulfur Proteins in Anaerobic Eukaryotes
The phylogeny and unexpected distribution of hydrogenase-related genes among extant organisms suggest an ancient and crucial role for members of this gene family in eukaryotes and are consistent with hydrogen ...
