Browsing by Subject "Sequence Analysis, DNA"
Now showing items 1-20 of 72
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A high-resolution map of human evolutionary constraint using 29 mammals.
(Nature, 2011-10-12)The comparison of related genomes has emerged as a powerful lens for genome interpretation. Here we report the sequencing and comparative analysis of 29 eutherian genomes. We confirm that at least 5.5% of the human genome ... -
A novel chloroplast gene reported for flagellate plants.
(American journal of botany, 2018-01)PREMISE OF THE STUDY:Gene space in plant plastid genomes is well characterized and annotated, yet we discovered an unrecognized open reading frame (ORF) in the fern lineage that is conserved across flagellate plants. METHODS:We ... -
A nucleosome-guided map of transcription factor binding sites in yeast.
(PLoS Comput Biol, 2007-11)Finding functional DNA binding sites of transcription factors (TFs) throughout the genome is a crucial step in understanding transcriptional regulation. Unfortunately, these binding sites are typically short and degenerate, ... -
Analyses of pediatric isolates of Cryptococcus neoformans from South Africa.
(J Clin Microbiol, 2011-01)Compared to the incidence in adults, cryptococcosis is inexplicably rare among children, even in sub-Saharan Africa, which has the highest prevalence of coinfection with HIV and Cryptococcus neoformans. To explore any mycological ... -
Association between novel PLCE1 variants identified in published esophageal cancer genome-wide association studies and risk of squamous cell carcinoma of the head and neck.
(BMC cancer, 2011-06-20)Phospholipase C epsilon 1 (PLCE1) (an effector of Ras) belonging to the phospholipase family plays crucial roles in carcinogenesis and progression of several cancers, including squamous cell carcinoma of the head and neck ... -
Associations between antibiotic exposure during pregnancy, birth weight and aberrant methylation at imprinted genes among offspring.
(International journal of obesity (2005), 2013-07)<h4>Objectives</h4>Low birth weight (LBW) has been associated with common adult-onset chronic diseases, including obesity, cardiovascular disease, type II diabetes and some cancers. The etiology of LBW is multi-factorial. ... -
Avian genomes. A flock of genomes. Introduction.
(Science, 2014-12-12) -
Biogeography in deep time - What do phylogenetics, geology, and paleoclimate tell us about early platyrrhine evolution?
(Mol Phylogenet Evol, 2015-01)Molecular data have converged on a consensus about the genus-level phylogeny of extant platyrrhine monkeys, but for most extinct taxa and certainly for those older than the Pleistocene we must rely upon morphological evidence ... -
Chiropteran types I and II interferon genes inferred from genome sequencing traces by a statistical gene-family assembler.
(BMC Genomics, 2010-07-21)BACKGROUND: The rate of emergence of human pathogens is steadily increasing; most of these novel agents originate in wildlife. Bats, remarkably, are the natural reservoirs of many of the most pathogenic viruses in humans. ... -
Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana.
(Mol Ecol, 2015-07)Cryptococcus neoformans var. grubii (Cng) is the most common cause of fungal meningitis, and its prevalence is highest in sub-Saharan Africa. Patients become infected by inhaling airborne spores or desiccated yeast cells ... -
Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species.
(Mol Ecol, 2010-03)Next-generation sequencing technology provides an attractive means to obtain large-scale sequence data necessary for comparative genomic analysis. To analyse the patterns of mutation rate variation and selection intensity ... -
Comparative genomics reveals insights into avian genome evolution and adaptation.
(Science, 2014-12-12)Birds are the most species-rich class of tetrapod vertebrates and have wide relevance across many research fields. We explored bird macroevolution using full genomes from 48 avian species representing all major extant clades. ... -
Complete genome sequencing and analysis of six enterovirus 71 strains with different clinical phenotypes.
(Virol J, 2013-04-11)BACKGROUND: Hand, foot and mouth diseases (HFMD) caused by enterovirus 71(EV71) presents a broad spectrum of clinical manifestations ranging from mild febrile disease to fatal neurolocal disease. However, the mechanism of ... -
Cyanobacterial ribosomal RNA genes with multiple, endonuclease-encoding group I introns.
(BMC evolutionary biology, 2007-09-08)Group I introns are one of the four major classes of introns as defined by their distinct splicing mechanisms. Because they catalyze their own removal from precursor transcripts, group I introns are referred to as autocatalytic ... -
Depression in pregnancy, infant birth weight and DNA methylation of imprint regulatory elements.
(Epigenetics : official journal of the DNA Methylation Society, 2012-07)Depressed mood in pregnancy has been linked to low birth weight (LBW, 4,500 g) infants had 5.9% higher methylation at the PLAGL1 DMR compared with normal birth weight infants. Our findings confirm that severe maternal depressed ... -
Distinguishing hypertrophic cardiomyopathy-associated mutations from background genetic noise.
(Journal of cardiovascular translational research, 2014-04)Despite the significant progress that has been made in identifying disease-associated mutations, the utility of the hypertrophic cardiomyopathy (HCM) genetic test is limited by a lack of understanding of the background genetic ... -
Do asexual polyploid lineages lead short evolutionary lives? A case study from the fern genus Astrolepis.
(Evolution; international journal of organic evolution, 2011-11)A life-history transition to asexuality is typically viewed as leading to a heightened extinction risk, and a number of studies have evaluated this claim by examining the relative ages of asexual versus closely related sexual ... -
Dual infection with Ehrlichia chaffeensis and a spotted fever group rickettsia: a case report.
(Emerging infectious diseases, 1998-04)Well-documented cases of simultaneous human infection with more than one tick-borne pathogen are rare. To our knowledge only two dual infections have been reported: simultaneous human infection with the agent of ... -
Evidence for GC-biased gene conversion as a driver of between-lineage differences in avian base composition.
(Genome Biol, 2014)BACKGROUND: While effective population size (Ne) and life history traits such as generation time are known to impact substitution rates, their potential effects on base composition evolution are less well understood. GC ... -
Evidence for reciprocal origins in Polypodium hesperium (Polypodiaceae): a fern model system for investigating how multiple origins shape allopolyploid genomes.
(American journal of botany, 2014-09-17)•Many polyploid species are composed of distinct lineages originating from multiple, independent polyploidization events. In the case of allopolyploids, reciprocal crosses between the same progenitor species can yield lineages ...
