Sequence Analysis, DNA

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  Subject Areas on Research

  • "Smart" DNA interfaces. 
  • 4.5 kb of the rat tyrosine hydroxylase 5' flanking sequence directs tissue specific expression during development and contains consensus sites for multiple transcription factors. 
  • A Flexible, Efficient Binomial Mixed Model for Identifying Differential DNA Methylation in Bisulfite Sequencing Data. 
  • A Fringe-modified Notch signal affects specification of mesoderm and endoderm in the sea urchin embryo. 
  • A Single Mutation in K13 Predominates in Southern China and Is Associated With Delayed Clearance of Plasmodium falciparum Following Artemisinin Treatment. 
  • A boy with fever and whorl keratopathy. 
  • A chemokine expressed in lymphoid high endothelial venules promotes the adhesion and chemotaxis of naive T lymphocytes. 
  • A comparison of the community diversity of foliar fungal endophytes between seedling and adult loblolly pines (Pinus taeda). 
  • A comprehensive structure-function analysis of Arabidopsis SNI1 defines essential regions and transcriptional repressor activity. 
  • A comprehensive survey of polymorphisms conferring anti-malarial resistance in Plasmodium falciparum across Pakistan. 
  • A cross-sectional survey of Plasmodium falciparum pfcrt mutant haplotypes in the Democratic Republic of Congo. 
  • A gene on chromosome 11q23 coding for a putative glucose- 6-phosphate translocase is mutated in glycogen-storage disease types Ib and Ic. 
  • A genetic legacy of introgression confounds phylogeny and biogeography in oaks. 
  • A global reference for human genetic variation. 
  • A heteroduplex method for detection of targeted sub-populations of bacterial communities. 
  • A heterozygous IDH1R132H/WT mutation induces genome-wide alterations in DNA methylation. 
  • A high-throughput method for quantifying alleles and haplotypes of the malaria vaccine candidate Plasmodium falciparum merozoite surface protein-1 19 kDa. 
  • A human protein related to yeast Cdc6p. 
  • A low-frequency variant at 8q24.21 is strongly associated with risk of oligodendroglial tumors and astrocytomas with IDH1 or IDH2 mutation. 
  • A maximum-likelihood base caller for DNA sequencing. 
  • A molecular-based approach for examining responses of eukaryotes in microcosms to contaminant-spiked estuarine sediments. 
  • A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families. 
  • A mutation in SLC24A1 implicated in autosomal-recessive congenital stationary night blindness. 
  • A mutation in the TRPC6 cation channel causes familial focal segmental glomerulosclerosis. 
  • A new NOS2 promoter polymorphism associated with increased nitric oxide production and protection from severe malaria in Tanzanian and Kenyan children. 
  • A new kinesin tree. 
  • A novel 2-oxoacid-dependent dioxygenase involved in the formation of the goiterogenic 2-hydroxybut-3-enyl glucosinolate and generalist insect resistance in Arabidopsis,. 
  • A novel alternative splice domain in zebrafish tenascin-C. 
  • A novel androgen-regulated gene, PMEPA1, located on chromosome 20q13 exhibits high level expression in prostate. 
  • A novel missense mutation of Wilms' Tumor 1 causes autosomal dominant FSGS. 
  • A nucleosome-guided map of transcription factor binding sites in yeast. 
  • A polymorphism within the promoter of the TGFβ1 gene is associated with radiation sensitivity using an objective radiologic endpoint. 
  • A rare penetrant mutation in CFH confers high risk of age-related macular degeneration. 
  • A strategy for the rapid identification of phosphorylation sites in the phosphoproteome. 
  • A tyrosine-phosphorylated protein that binds to an important regulatory region on the cool family of p21-activated kinase-binding proteins. 
  • Absence of mitochondrial progesterone receptor polymorphisms in women with spontaneous preterm birth. 
  • Absence of mutation in the beta- and gamma-synuclein genes in familial autosomal dominant Parkinson's disease. 
  • Actionable diagnosis of neuroleptospirosis by next-generation sequencing. 
  • Activated cAMP-response element-binding protein regulates neuronal expression of presenilin-1. 
  • Activating mutations in STIM1 and ORAI1 cause overlapping syndromes of tubular myopathy and congenital miosis. 
  • Activation of the plant mitochondrial alternative oxidase: insights from site-directed mutagenesis. 
  • Additional evidence that PGAP1 loss of function causes autosomal recessive global developmental delay and encephalopathy. 
  • Adenylate cyclase toxin (ACT) from Bordetella hinzii: characterization and differences from ACT of Bordetella pertussis. 
  • African strains of hepatitis E virus that are distinct from Asian strains. 
  • Allele-specific gene expression in a wild nonhuman primate population. 
  • Alleles of the yeast Pms1 mismatch-repair gene that differentially affect recombination- and replication-related processes. 
  • Allotetraploid Mimulus sookensis are highly interfertile despite independent origins. 
  • An STS-based map of the human genome. 
  • An autonomously self-assembling dendritic DNA nanostructure for target DNA detection. 
  • An information-theoretic method for the treatment of plural ancestry in phylogenetics. 
  • An integrated genomic analysis of human glioblastoma multiforme. 
  • An obligately photosynthetic bacterial anaerobe from a deep-sea hydrothermal vent. 
  • Analyses of pediatric isolates of Cryptococcus neoformans from South Africa. 
  • Analysis of 30 genes (355 SNPS) related to energy homeostasis for association with adiposity in European-American and Yup'ik Eskimo populations. 
  • Analysis of association at single nucleotide polymorphisms in the APOE region. 
  • Analysis of erythropoietin and erythropoietin receptor genes expression in cattle during acute infection with Trypanosoma congolense. 
  • Analysis of non-synonymous-coding variants of Parkinson's disease-related pathogenic and susceptibility genes in East Asian populations. 
  • Analysis of the indel at the ARMS2 3'UTR in age-related macular degeneration. 
  • Another surprise from the mitochondrial genome. 
  • Aquacultured rainbow trout (Oncorhynchus mykiss) possess a large core intestinal microbiota that is resistant to variation in diet and rearing density. 
  • Artifactual frame-shift p53 mutation at codon 249 detected with the Cyclist DNA sequencing method. 
  • Assessing disease severity in Pompe disease: the roles of a urinary glucose tetrasaccharide biomarker and imaging techniques. 
  • Association between 16S-23S internal transcribed spacer sequence groups of Mycobacterium avium complex and pulmonary disease. 
  • 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. 
  • Association of CD8(+) T lymphocyte repertoire spreading with the severity of DRESS syndrome. 
  • Association of genetic variants of O6-methylguanine-DNA methyltransferase with risk of lung cancer in non-Hispanic Whites. 
  • Association of levels of fasting glucose and insulin with rare variants at the chromosome 11p11.2-MADD locus: Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium Targeted Sequencing Study. 
  • Association of low-frequency and rare coding-sequence variants with blood lipids and coronary heart disease in 56,000 whites and blacks. 
  • Associations between antibiotic exposure during pregnancy, birth weight and aberrant methylation at imprinted genes among offspring. 
  • Automated constraint-based nucleotide sequence selection for DNA computation. 
  • Avian genomes. A flock of genomes. Introduction. 
  • Biogeography in deep time - What do phylogenetics, geology, and paleoclimate tell us about early platyrrhine evolution? 
  • Bisulfite pyrosequencing. 
  • Bisulfite sequencing of cloned alleles. 
  • Blood-based diagnostic testing for Pompe disease: consistency between GAA enzyme activity in dried blood spots and GAA gene sequencing results. 
  • Boranophosphates as mimics of natural phosphodiesters in DNA. 
  • Broad host range vectors for stable genomic library construction. 
  • Burkholderia glumae infection in an infant with chronic granulomatous disease. 
  • CA150, a nuclear protein associated with the RNA polymerase II holoenzyme, is involved in Tat-activated human immunodeficiency virus type 1 transcription. 
  • CC2D2A is mutated in Joubert syndrome and interacts with the ciliopathy-associated basal body protein CEP290. 
  • CCAAT/enhancer-binding protein alpha is required for transcription of the beta 3-adrenergic receptor gene during adipogenesis. 
  • CFTR haplotype analysis reveals genetic heterogeneity in the etiology of congenital bilateral aplasia of the vas deferens. 
  • CLPB mutations cause 3-methylglutaconic aciduria, progressive brain atrophy, intellectual disability, congenital neutropenia, cataracts, movement disorder. 
  • CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome. 
  • Calreticulin chaperones regulate functional expression of vomeronasal type 2 pheromone receptors. 
  • Canine model and genomic structural organization of glycogen storage disease type Ia (GSD Ia). 
  • Carbonic anhydrase and CO2 sensing during Cryptococcus neoformans growth, differentiation, and virulence. 
  • Characterization and prevalence of PITX2 microdeletions and mutations in Axenfeld-Rieger malformations. 
  • Characterization of a cholesterol response element (CRE) in the promoter of the cholesteryl ester transfer protein gene: functional role of the transcription factors SREBP-1a, -2, and YY1. 
  • Characterization of gene expression in human trabecular meshwork using single-pass sequencing of 1060 clones. 
  • Characterization of protective immune response elicited by a trimeric envelope protein from an Indian clade C HIV-1 isolate in rhesus macaques. 
  • Characterization of the intronic splicing silencers flanking FGFR2 exon IIIb. 
  • Characterization of the mouse transforming growth factor alpha gene: its expression during eyelid development and in waved 1 tissues. 
  • Characterization of the neural stem cell gene regulatory network identifies OLIG2 as a multifunctional regulator of self-renewal. 
  • Characterization of the variable-number tandem repeats in vrrA from different Bacillus anthracis isolates. 
  • Chiropteran types I and II interferon genes inferred from genome sequencing traces by a statistical gene-family assembler. 
  • Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity. 
  • Chromosomal localization of gene for human glutamate receptor subunit-7. 
  • Circular viral DNA and anomalous junction sequence in PBMC of HIV-infected individuals with no detectable plasma HIV RNA. 
  • Clinical application of exome sequencing in undiagnosed genetic conditions. 
  • Clinical experience with array CGH: case presentations from nine months of practice. 
  • Clinical interpretation and implications of whole-genome sequencing. 
  • Clonal amplification and maternal-infant transmission of nevirapine-resistant HIV-1 variants in breast milk following single-dose nevirapine prophylaxis. 
  • Cloning and characterization of a mammalian prenyl protein-specific protease. 
  • Cloning and characterization of the nitrate reductase-encoding gene from Chlorella vulgaris: structure and identification of transcription start points and initiator sequences. 
  • Cloning and characterization of two splice variants of human phosphodiesterase 11A. 
  • Cloning of the promoter region of human endoglin, the target gene for hereditary hemorrhagic telangiectasia type 1. 
  • Coding Variation in ANGPTL4, LPL, and SVEP1 and the Risk of Coronary Disease. 
  • Community pyrimethamine-sulfadoxine use and prevalence of resistant Plasmodium falciparum genotypes in Mali: a model for deterring resistance. 
  • Compact organization of rRNA genes in the filamentous fungus Ashbya gossypii. 
  • Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana. 
  • Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae). 
  • Comparative genomics and regulatory evolution: conservation and function of the Chs and Apetala3 promoters. 
  • Comparative genomics of Mortierella elongata and its bacterial endosymbiont Mycoavidus cysteinexigens. 
  • Comparative genomics reveals insights into avian genome evolution and adaptation. 
  • Comparative physical and transcript maps of approximately 1 Mb around loop-tail, a gene for severe neural tube defects on distal mouse chromosome 1 and human chromosome 1q22-q23. 
  • Comparative population structure of two deep-sea hydrothermal-vent-associated decapods (Chorocaris sp. 2 and Munidopsis lauensis) from southwestern Pacific back-arc basins. 
  • Comparative tests of evolutionary trade-offs in a palinurid lobster acoustic system. 
  • Comparison of ribosomal DNA ITS regions among geographic isolates of Cenococcum geophilum. 
  • Comparison of seven techniques for typing international epidemic strains of Clostridium difficile: restriction endonuclease analysis, pulsed-field gel electrophoresis, PCR-ribotyping, multilocus sequence typing, multilocus variable-number tandem-repeat analysis, amplified fragment length polymorphism, and surface layer protein A gene sequence typing. 
  • Complement factor H variant increases the risk of age-related macular degeneration. 
  • Complete genome sequencing and analysis of six enterovirus 71 strains with different clinical phenotypes. 
  • Complexity reduction in context-dependent DNA substitution models. 
  • Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. 
  • Concessions of an alpha male? Cooperative defence and shared reproduction in multi-male primate groups. 
  • Consensus multi-locus sequence typing scheme for Cryptococcus neoformans and Cryptococcus gattii. 
  • Conservation of Endo16 expression in sea urchins despite evolutionary divergence in both cis and trans-acting components of transcriptional regulation. 
  • Conservation of Y-linked genes during human evolution revealed by comparative sequencing in chimpanzee. 
  • Contrasting quaternary histories in an ecologically divergent sister pair of low-dispersing intertidal fish (Xiphister) revealed by multilocus DNA analysis. 
  • Contribution of RPB2 to multilocus phylogenetic studies of the euascomycetes (Pezizomycotina, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory. 
  • Contribution of horizontal gene transfer to the evolution of Saccharomyces cerevisiae. 
  • Cowpox virus contains two copies of an early gene encoding a soluble secreted form of the type II TNF receptor. 
  • Cross-reactive HIV-1-neutralizing human monoclonal antibodies identified from a patient with 2F5-like antibodies. 
  • Cyanobacterial ribosomal RNA genes with multiple, endonuclease-encoding group I introns. 
  • DNA copy number evolution in Drosophila cell lines. 
  • DNA methylation alterations in response to pesticide exposure in vitro. 
  • DNA methylation at imprint regulatory regions in preterm birth and infection. 
  • DNA methylation profiling in the Carolina Breast Cancer Study defines cancer subclasses differing in clinicopathologic characteristics and survival. 
  • DNA sequence characterization and molecular evolution of MAT1 and MAT2 mating-type loci of the self-compatible ascomycete mold Neosartorya fischeri. 
  • DNA sequencing: detecting methylation with force. 
  • DNMT3b polymorphism and hereditary nonpolyposis colorectal cancer age of onset. 
  • DNase I sensitivity QTLs are a major determinant of human expression variation. 
  • Dating branches on the tree of life using DNA. 
  • De Novo Mutations in PPP3CA Cause Severe Neurodevelopmental Disease with Seizures. 
  • Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing. 
  • Decreased expression of lysyl hydroxylase 2 (LH2) in skin fibroblasts from three Ehlers-Danlos patients does not result from mutations in either the coding or proximal promoter region of the LH2 gene. 
  • Deep Sequencing of 71 Candidate Genes to Characterize Variation Associated with Alcohol Dependence. 
  • Deep divergence and rapid evolutionary rates in gut-associated Acetobacteraceae of ants. 
  • Depression in pregnancy, infant birth weight and DNA methylation of imprint regulatory elements. 
  • Destabilization of simple repetitive DNA sequences by transcription in yeast. 
  • Detailed analysis of allelic variation in the ABCA4 gene in age-related maculopathy. 
  • Determinants of CD4 independence for a human immunodeficiency virus type 1 variant map outside regions required for coreceptor specificity. 
  • Different transcript patterns in response to specialist and generalist herbivores in the wild Arabidopsis relative Boechera divaricarpa. 
  • Differential display of hepatic mRNA from killifish (Fundulus heteroclitus) inhabiting a Superfund estuary. 
  • Differential patterns of male and female mtDNA exchange across the Atlantic Ocean in the blue mussel, Mytilus edulis. 
  • Differentially methylated regions of imprinted genes in prenatal, perinatal and postnatal human tissues. 
  • Digital microfluidic chips for chemical and biological applications. 
  • Distinct Epigenetic Effects of Tobacco Smoking in Whole Blood and among Leukocyte Subtypes. 
  • Distribution and diversity of planktonic fungi in the West Pacific Warm Pool. 
  • Distribution of WDR36 DNA sequence variants in patients with primary open-angle glaucoma. 
  • Distribution of optineurin sequence variations in an ethnically diverse population of low-tension glaucoma patients from the United States. 
  • Diversification before the most recent glaciation in Balanus glandula. 
  • Diversity and detection of nitrate assimilation genes in marine bacteria. 
  • Diversity and host range of foliar fungal endophytes: are tropical leaves biodiversity hotspots? 
  • Diversity and phylogenetic affinities of foliar fungal endophytes in loblolly pine inferred by culturing and environmental PCR. 
  • Do asexual polyploid lineages lead short evolutionary lives? A case study from the fern genus Astrolepis. 
  • Dosage changes of a segment at 17p13.1 lead to intellectual disability and microcephaly as a result of complex genetic interaction of multiple genes. 
  • Dramatic mitochondrial gene rearrangements in the hermit crab Pagurus longicarpus (Crustacea, anomura). 
  • Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading. 
  • Dual infection with Ehrlichia chaffeensis and a spotted fever group rickettsia: a case report. 
  • Early-onset stroke and vasculopathy associated with mutations in ADA2. 
  • Effects of raltegravir on 2-long terminal repeat circle junctions in HIV type 1 viremic and aviremic patients. 
  • Efficient Genome-Wide Sequencing and Low-Coverage Pedigree Analysis from Noninvasively Collected Samples. 
  • Elevated MAL expression is accompanied by promoter hypomethylation and platinum resistance in epithelial ovarian cancer. 
  • Emergence of Epidemic Dengue-1 Virus in the Southern Province of Sri Lanka. 
  • Enhanced potency of a broadly neutralizing HIV-1 antibody in vitro improves protection against lentiviral infection in vivo. 
  • Enteropathy-associated T cell lymphoma subtypes are characterized by loss of function of SETD2. 
  • Epigenetic detection of human chromosome 14 uniparental disomy. 
  • Essential light chain of Drosophila nonmuscle myosin II. 
  • Evaluation and optimisation of indel detection workflows for ion torrent sequencing of the BRCA1 and BRCA2 genes. 
  • Evaluation of Lipin 2 as a candidate gene for autosomal dominant 1 high-grade myopia. 
  • Evidence for GC-biased gene conversion as a driver of between-lineage differences in avian base composition. 
  • Evidence for reciprocal origins in Polypodium hesperium (Polypodiaceae): a fern model system for investigating how multiple origins shape allopolyploid genomes. 
  • Evidence of mRNA-mediated intron loss in the human-pathogenic fungus Cryptococcus neoformans. 
  • Evidence of sexual recombination among Cryptococcus neoformans serotype A isolates in sub-Saharan Africa. 
  • Evidence-ranked motif identification. 
  • Evolution of Pleopsidium (lichenized Ascomycota) S943 group I introns and the phylogeography of an intron-encoded putative homing endonuclease. 
  • Evolution of drug-resistant viral populations during interruption of antiretroviral therapy. 
  • Evolution of flux control in the glucosinolate pathway in Arabidopsis thaliana. 
  • Evolution of genes and genomes on the Drosophila phylogeny. 
  • Evolution of relative synonymous codon usage in Human Immunodeficiency Virus type-1. 
  • Evolutionary analysis of the well characterized endo16 promoter reveals substantial variation within functional sites. 
  • Evolutionary relationships within the Neotropical, eusporangiate fern genus Danaea (Marattiaceae). 
  • Examination of type IV pilus expression and pilus-associated phenotypes in Kingella kingae clinical isolates. 
  • Exclusion of lumican and fibromodulin as candidate genes in MYP3 linked high grade myopia. 
  • Exome analysis of two limb-girdle muscular dystrophy families: mutations identified and challenges encountered. 
  • Exome sequencing followed by large-scale genotyping fails to identify single rare variants of large effect in idiopathic generalized epilepsy. 
  • Exome sequencing followed by large-scale genotyping suggests a limited role for moderately rare risk factors of strong effect in schizophrenia. 
  • Exome sequencing identifies distinct mutational patterns in liver fluke-related and non-infection-related bile duct cancers. 
  • Exome sequencing identifies highly recurrent MED12 somatic mutations in breast fibroadenoma. 
  • Exome sequencing identifies recurrent somatic RAC1 mutations in melanoma. 
  • Exome sequencing in amyotrophic lateral sclerosis identifies risk genes and pathways. 
  • Exome-wide Sequencing Shows Low Mutation Rates and Identifies Novel Mutated Genes in Seminomas. 
  • Expansion of somatically reverted memory CD8+ T cells in patients with X-linked lymphoproliferative disease caused by selective pressure from Epstein-Barr virus. 
  • Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection. 
  • Expressed sequence tag analysis in Cycas, the most primitive living seed plant. 
  • Expression in aneuploid Drosophila S2 cells. 
  • Expression of a chemokine by ciliary body epithelium in horses with naturally occurring recurrent uveitis and in cultured ciliary body epithelial cells. 
  • Expression of the protein tyrosine phosphatase, phosphatase of regenerating liver 1, in the outer segments of primate cone photoreceptors. 
  • Expression profile of an androgen regulated prostate specific homeobox gene NKX3.1 in primary prostate cancer. 
  • Extensive chloroplast haplotype variation indicates Pleistocene hybridization and radiation of North American Arabis drummondii, A. x divaricarpa, and A. holboellii (Brassicaceae). 
  • F-Seq: a feature density estimator for high-throughput sequence tags. 
  • Fanconi anemia gene variants in therapy-related myeloid neoplasms. 
  • Fast Dissemination of New HIV-1 CRF02/A1 Recombinants in Pakistan. 
  • Faster algorithms for optimal multiple sequence alignment based on pairwise comparisons. 
  • Finding regulatory DNA motifs using alignment-free evolutionary conservation information. 
  • Flexible use of high-density oligonucleotide arrays for single-nucleotide polymorphism discovery and validation. 
  • Focused evolution of HIV-1 neutralizing antibodies revealed by structures and deep sequencing. 
  • Forward genetic approaches in Chlamydia trachomatis. 
  • Frequent detection of codon 877 mutation in the androgen receptor gene in advanced prostate cancers. 
  • Functional consequences of natural sequence variation in the activation domain of HIV-1 Rev. 
  • Functionally compromised CHD7 alleles in patients with isolated GnRH deficiency. 
  • Fungal Community Responses to Past and Future Atmospheric CO2 Differ by Soil Type. 
  • Fungal community analysis by large-scale sequencing of environmental samples. 
  • Genetic Drivers of Kidney Defects in the DiGeorge Syndrome. 
  • Genetic analysis of the requirements for SOS induction by nalidixic acid in Escherichia coli. 
  • Genetic and functional association of FAM5C with myocardial infarction. 
  • Genetic and neutralization properties of subtype C human immunodeficiency virus type 1 molecular env clones from acute and early heterosexually acquired infections in Southern Africa. 
  • Genetic diagnosis of autism spectrum disorders: the opportunity and challenge in the genomics era. 
  • Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. 
  • Genetic diversity of the Cryptococcus species complex suggests that Cryptococcus gattii deserves to have varieties. 
  • Genetic isolation between two recently diverged populations of a symbiotic fungus. 
  • Genetic plasticity of V genes under somatic hypermutation: statistical analyses using a new resampling-based methodology. 
  • Genetic screen of African Americans with Fuchs endothelial corneal dystrophy. 
  • Genetic structure and genealogy in the Sphagnum subsecundum complex (Sphagnaceae: Bryophyta). 
  • Genetic typing of HIV-2 from a Senegalese/German heterosexual transmission. 
  • Genetic variation in the 3' non-coding region of dengue viruses. 
  • Genetic variation in the odorant receptor OR2J3 is associated with the ability to detect the "grassy" smelling odor, cis-3-hexen-1-ol. 
  • Genome Evolution and Innovation across the Four Major Lineages of Cryptococcus gattii. 
  • Genome engineering: the next genomic revolution. 
  • Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production. 
  • Genome wide analyses reveal little evidence for adaptive evolution in many plant species. 
  • Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS). 
  • Genome-wide mutagenesis of influenza virus reveals unique plasticity of the hemagglutinin and NS1 proteins. 
  • Genome-wide prediction of imprinted murine genes. 
  • Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators. 
  • Genomes of Ashbya fungi isolated from insects reveal four mating-type loci, numerous translocations, lack of transposons, and distinct gene duplications. 
  • Genomewide investigation of adaptation to harmful algal blooms in common bottlenose dolphins (Tursiops truncatus). 
  • Genomic analysis of diffuse intrinsic pontine gliomas identifies three molecular subgroups and recurrent activating ACVR1 mutations. 
  • Genomic characterization of large heterochromatic gaps in the human genome assembly. 
  • Genomic organization, expression, and localization of murine Ran-binding protein 2 (RanBP2) gene. 
  • Genomic signatures of near-extinction and rebirth of the crested ibis and other endangered bird species. 
  • Genomic structure and organization of the high grade Myopia-2 locus (MYP2) critical region: mutation screening of 9 positional candidate genes. 
  • Genomic sweeping for hypermethylated genes. 
  • Genomics and Transcriptomics Analyses of the Oil-Accumulating Basidiomycete Yeast Trichosporon oleaginosus: Insights into Substrate Utilization and Alternative Evolutionary Trajectories of Fungal Mating Systems. 
  • Genomics and genetics of human and primate y chromosomes. 
  • Genotypic analysis of tumor suppressor genes PTEN/MMAC1 and p53 in head and neck squamous cell carcinomas. 
  • Genotypic diversity of anaerobic isolates from bloodstream infections. 
  • Genotypic diversity of coagulase-negative staphylococci causing endocarditis: a global perspective. 
  • Germline and somatic SMARCA4 mutations characterize small cell carcinoma of the ovary, hypercalcemic type. 
  • Global genetic diversity of human metapneumovirus fusion gene. 
  • Global patterns in peatmoss biodiversity. 
  • Glycogen-branching enzyme deficiency leads to abnormal cardiac development: novel insights into glycogen storage disease IV. 
  • Group-I intron family in the nuclear ribosomal RNA small subunit genes of Cenococcum geophilum isolates. 
  • HBV whole-genome mutation profile in HIV-1/HBV coinfected patients in a long-term follow-up study. 
  • HIV quasispecies and resampling. 
  • HIV type 1 from a patient with baseline resistance to CCR5 antagonists uses drug-bound receptor for entry. 
  • Heritable individual-specific and allele-specific chromatin signatures in humans. 
  • Heterochromatic sequences in a Drosophila whole-genome shotgun assembly. 
  • Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition. 
  • Heterothallic mating in Mucor irregularis and first isolate of the species outside of Asia. 
  • High frequency of mutations of the PIK3CA gene in human cancers. 
  • High genetic diversity and population differentiation in Boechera fecunda, a rare relative of Arabidopsis. 
  • High throughput detection of M6P/IGF2R intronic hypermethylation and LOH in ovarian cancer. 
  • High-resolution mapping and characterization of open chromatin across the genome. 
  • Highly active zinc-finger nucleases by extended modular assembly. 
  • Historical effects on beta diversity and community assembly in Amazonian trees. 
  • Host lifestyle affects human microbiota on daily timescales. 
  • Host-symbiont stability and fast evolutionary rates in an ant-bacterium association: cospeciation of camponotus species and their endosymbionts, candidatus blochmannia. 
  • Human and mouse alpha-synuclein genes: comparative genomic sequence analysis and identification of a novel gene regulatory element. 
  • Human disturbance causes the formation of a hybrid swarm between two naturally sympatric fish species. 
  • Human immunodeficiency virus type 1 protease genotype predicts immune and viral responses to combination therapy with protease inhibitors (PIs) in PI-naive patients. 
  • Human metapneumovirus, Peru. 
  • Human promoters are intrinsically directional. 
  • Human syndromes of immunodeficiency and dysregulation are characterized by distinct defects in T-cell receptor repertoire development. 
  • IGF2R genetic variants, circulating IGF2 concentrations and colon cancer risk in African Americans and Whites. 
  • Identification and characterization of K12 (SECTM1), a novel human gene that encodes a Golgi-associated protein with transmembrane and secreted isoforms. 
  • Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome. 
  • Identification and developmental expression of two activin receptors in baboon lung. 
  • Identification of 28 novel mutations in the Bardet-Biedl syndrome genes: the burden of private mutations in an extensively heterogeneous disease. 
  • Identification of HIV-1 genitourinary tract compartmentalization by analyzing the env gene sequences in urine. 
  • Identification of a copper transporter family in Arabidopsis thaliana. 
  • Identification of a region of genetic variability among Bacillus anthracis strains and related species. 
  • Identification of amino acid substitutions associated with neutralization phenotype in the human immunodeficiency virus type-1 subtype C gp120. 
  • Identification of core promoter modules in Drosophila and their application in accurate transcription start site prediction. 
  • Identification of genes expressed in a human scleral cDNA library. 
  • Identification of new mamu-DRB alleles using DGGE and direct sequencing. 
  • Identification of ongoing human immunodeficiency virus type 1 (HIV-1) replication in residual viremia during recombinant HIV-1 poxvirus immunizations in patients with clinically undetectable viral loads on durable suppressive highly active antiretroviral therapy. 
  • Identification of the mating-type (MAT) locus that controls sexual reproduction of Blastomyces dermatitidis. 
  • Identification of the sequences within the human complement 3 promoter required for estrogen responsiveness provides insight into the mechanism of tamoxifen mixed agonist activity. 
  • Identifying multiple origins of polyploid taxa: a multilocus study of the hybrid cloak fern (Astrolepis integerrima; Pteridaceae). 
  • Immunization with recombinant HLA classes I and II, HIV-1 gp140, and SIV p27 elicits protection against heterologous SHIV infection in rhesus macaques. 
  • Impact of genotypic resistance testing on physician selection of antiretroviral therapy. 
  • Implementing a cumulative supermatrix approach for a comprehensive phylogenetic study of the Teloschistales (Pezizomycotina, Ascomycota). 
  • Importance sampling for the infinite sites model. 
  • Imprinted expression of the canine IGF2R, in the absence of an anti-sense transcript or promoter methylation. 
  • Imprinting of PEG3, the human homologue of a mouse gene involved in nurturing behavior. 
  • In-depth analysis of Kaposi's sarcoma-associated herpesvirus microRNA expression provides insights into the mammalian microRNA-processing machinery. 
  • Inbreeding depression in non-human primates: a historical review of methods used and empirical data. 
  • Increased rectal microbial richness is associated with the presence of colorectal adenomas in humans. 
  • Independent ancient polyploidy events in the sister families Brassicaceae and Cleomaceae. 
  • Informative priors based on transcription factor structural class improve de novo motif discovery. 
  • Inhibition of a yeast LTR retrotransposon by human APOBEC3 cytidine deaminases. 
  • Initial antibodies binding to HIV-1 gp41 in acutely infected subjects are polyreactive and highly mutated. 
  • Initial sequencing and analysis of the human genome. 
  • Initial sequencing and comparative analysis of the mouse genome. 
  • Insensitivity of Diverse and Temporally Variable Particle-Associated Microbial Communities to Bulk Seawater Environmental Parameters. 
  • Integrating chemical mutagenesis and whole-genome sequencing as a platform for forward and reverse genetic analysis of Chlamydia. 
  • Interrogation of individual intratumoral B lymphocytes from lung cancer patients for molecular target discovery. 
  • Intraspecific phylogenetic congruence among multiple symbiont genomes. 
  • Intraspecific variation in symbiont genomes: bottlenecks and the aphid-buchnera association. 
  • Invasive aspergillosis due to Neosartorya udagawae. 
  • Invasive disease caused by nontuberculous mycobacteria, Tanzania. 
  • Investigating deep phylogenetic relationships among cyanobacteria and plastids by small subunit rRNA sequence analysis. 
  • Is the aneuploid chromosome in an apomictic Boechera holboellii a genuine B chromosome? 
  • Isolation and characterization of a new chemokine receptor gene, the putative chicken CXCR1. 
  • Isolation and characterization of the CYP71D16 trichome-specific promoter from Nicotiana tabacum L. 
  • Isolation and initial characterization of the 5' flanking region of the human and murine cyclic guanosine monophosphate-phosphodiesterase beta-subunit genes. 
  • Isolation and initial characterization of the BRCA2 promoter. 
  • Isolation of genes negatively or positively co-expressed with human recombination activating gene 1 (RAG1) by differential display PCR (DD RT-PCR). 
  • Lack of association of mutations in optineurin with disease in patients with adult-onset primary open-angle glaucoma. 
  • Lagenidium sp. ocular infection mimicking ocular pythiosis. 
  • Landscape position influences microbial composition and function via redistribution of soil water across a watershed. 
  • Large scale association analysis for identification of genes underlying premature coronary heart disease: cumulative perspective from analysis of 111 candidate genes. 
  • Large-scale identification and analysis of genome-wide single-nucleotide polymorphisms for mapping in Arabidopsis thaliana. 
  • Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. 
  • Leptotrichia endocarditis: report of two cases from the International Collaboration on Endocarditis (ICE) database and review of previous cases. 
  • Life, diversity and the pursuit of haplotypes. 
  • Limited geographical origin and global spread of sulfadoxine-resistant dhps alleles in Plasmodium falciparum populations. 
  • Local replication of simian immunodeficiency virus in the breast milk compartment of chronically-infected, lactating rhesus monkeys. 
  • Loop mediated isothermal amplification (LAMP) assay for detection of coconut root wilt disease and arecanut yellow leaf disease phytoplasma. 
  • Loss of Function Mutations in NNT Are Associated With Left Ventricular Noncompaction. 
  • Low frequency of paleoviral infiltration across the avian phylogeny. 
  • Low level exposure to the flame retardant BDE-209 reduces thyroid hormone levels and disrupts thyroid signaling in fathead minnows. 
  • Low prevalence of myocilin mutations in an African American population with primary open-angle glaucoma. 
  • Lysis and lysis inhibition in bacteriophage T4: rV mutations reside in the holin t gene. 
  • MSIseq: Software for Assessing Microsatellite Instability from Catalogs of Somatic Mutations. 
  • MTL genotypes, phenotypic switching, and susceptibility profiles of Candida parapsilosis species group compared to Lodderomyces elongisporus. 
  • Making sense of microarrays. 
  • Malaria severity and human nitric oxide synthase type 2 (NOS2) promoter haplotypes. 
  • Maternal microchimerism in Hirschsprung's disease. 
  • Mating-type locus of Cryptococcus neoformans: a step in the evolution of sex chromosomes. 
  • Matrix metalloproteinase-1 gene promoter polymorphism and risk of ovarian cancer. 
  • Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships. 
  • Mesotheliomas induced in rats by the fibrous mineral erionite are independent from p53 alterations. 
  • Methodology for a vaginal and urinary microbiome study in women with mixed urinary incontinence. 
  • Microbiome of the upper troposphere: species composition and prevalence, effects of tropical storms, and atmospheric implications. 
  • Microsatellite analysis of genetic diversity among clinical and nonclinical Saccharomyces cerevisiae isolates suggests heterozygote advantage in clinical environments. 
  • Misidentification of Neosartorya pseudofischeri as Aspergillus fumigatus in a lung transplant patient. 
  • Missing genetic risk in neural tube defects: can exome sequencing yield an insight? 
  • Mistaken Identity: Another Bias in the Use of Relative Genetic Divergence Measures for Detecting Interspecies Introgression. 
  • Mitochondrial NADP(H) deficiency due to a mutation in NADK2 causes dienoyl-CoA reductase deficiency with hyperlysinemia. 
  • Mobile elements and mitochondrial genome expansion in the soil fungus and potato pathogen Rhizoctonia solani AG-3. 
  • Modeling the evolution of regulatory elements by simultaneous detection and alignment with phylogenetic pair HMMs. 
  • Molecular analyses of the Arabidopsis TUBBY-like protein gene family. 
  • Molecular analysis of HLA-B35 alleles and their relationship to HLA-B15 alleles. 
  • Molecular analysis of adenovirus isolates from vaccinated and unvaccinated young adults. 
  • Molecular analysis of the Cryptococcus neoformans ADE2 gene, a selectable marker for transformation and gene disruption. 
  • Molecular basis of a novel adaptation to hypoxic-hypercapnia in a strictly fossorial mole. 
  • Molecular characterization of CLPT1, a SEC4-like Rab/GTPase of the phytopathogenic fungus Colletotrichum lindemuthianum which is regulated by the carbon source. 
  • Molecular genetic testing and the future of clinical genomics. 
  • Molecular identification of Aspergillus species collected for the Transplant-Associated Infection Surveillance Network. 
  • Molecular identification, cloning and characterization of transmitted/founder HIV-1 subtype A, D and A/D infectious molecular clones. 
  • Molecular phylogeography and cryptic speciation in the mosses, Mielichhoferia elongata and M. mielichhoferiana (Bryaceae). 
  • Molecular recognition of ketamine by a subset of olfactory G protein-coupled receptors. 
  • Molecular typing of clinical adenovirus specimens by an algorithm which permits detection of adenovirus coinfections and intermediate adenovirus strains. 
  • Morphometric and molecular characterization of the species of Uncinaria Frölich, 1789 (Nematoda) parasitic in the Australian fur seal Arctocephalus pusillus doriferus (Schreber), with notes on hookworms in three other pinniped hosts. 
  • Most environmental isolates of Cryptococcus neoformans var. grubii (serotype A) are not lethal for mice. 
  • Multicenter evaluation of the Vitek 2 anaerobe and Corynebacterium identification card. 
  • Multicenter evaluation of the new Vitek 2 Neisseria-Haemophilus identification card. 
  • Multidonor analysis reveals structural elements, genetic determinants, and maturation pathway for HIV-1 neutralization by VRC01-class antibodies. 
  • Multilocus sequence typing reveals three genetic subpopulations of Cryptococcus neoformans var. grubii (serotype A), including a unique population in Botswana. 
  • Multiple origins of hybrid strains of Cryptococcus neoformans with serotype AD. 
  • Multiple potential regulatory elements in the 5' flanking region of the human alpha 1a-adrenergic receptor. 
  • Multiplex 5' nuclease-quantitative PCR for diagnosis of relapsing fever in a large Tanzanian cohort. 
  • Multiplexed short tandem repeat polymorphisms of the Weber 8A set of markers using tailed primers and infrared fluorescence detection. 
  • Multivariate analysis of associations of 42 genes in ADHD, ODD and conduct disorder. 
  • Murine noroviruses comprising a single genogroup exhibit biological diversity despite limited sequence divergence. 
  • Mutation and overexpression of p53 in early-stage epithelial ovarian cancer. 
  • Mutation exposed: a neutral explanation for extreme base composition of an endosymbiont genome. 
  • Mutation in TECPR2 reveals a role for autophagy in hereditary spastic paraparesis. 
  • Mutation of TBCE causes hypoparathyroidism-retardation-dysmorphism and autosomal recessive Kenny-Caffey syndrome. 
  • Mutation screening of patients with Leber Congenital Amaurosis or the enhanced S-Cone Syndrome reveals a lack of sequence variations in the NRL gene. 
  • Mutational landscapes of tongue carcinoma reveal recurrent mutations in genes of therapeutic and prognostic relevance. 
  • Mutations in CIC and FUBP1 contribute to human oligodendroglioma. 
  • Mutations in DDX3X Are a Common Cause of Unexplained Intellectual Disability with Gender-Specific Effects on Wnt Signaling. 
  • Mutations in NGLY1 cause an inherited disorder of the endoplasmic reticulum-associated degradation pathway. 
  • Mutations in RAD21 disrupt regulation of APOB in patients with chronic intestinal pseudo-obstruction. 
  • Mutations in RSPH1 cause primary ciliary dyskinesia with a unique clinical and ciliary phenotype. 
  • Mutations in SCO2 are associated with autosomal-dominant high-grade myopia. 
  • Mutations in TNK2 in severe autosomal recessive infantile onset epilepsy. 
  • Mutations in a gene encoding a novel protein containing a phosphotyrosine-binding domain cause type 2 cerebral cavernous malformations. 
  • Mutations in the endothelin receptor type A cause mandibulofacial dysostosis with alopecia. 
  • Mutations of the Ki-ras oncogene in endometrial carcinoma. 
  • Myotilin is mutated in limb girdle muscular dystrophy 1A. 
  • NPAS3 is a trachealess homolog critical for lung development and homeostasis. 
  • Natural IgM is produced by CD5- plasma cells that occupy a distinct survival niche in bone marrow. 
  • Nature and distribution of large sequence polymorphisms in Saccharomyces cerevisiae. 
  • New Member of the V1V2-Directed CAP256-VRC26 Lineage That Shows Increased Breadth and Exceptional Potency. 
  • New techniques for DNA sequence classification. 
  • New var reconstruction algorithm exposes high var sequence diversity in a single geographic location in Mali. 
  • Newborns of obese parents have altered DNA methylation patterns at imprinted genes. 
  • Next generation sequencing to detect variation in the Plasmodium falciparum circumsporozoite protein. 
  • Next-generation genotyping of hypervariable loci in many individuals of a non-model species: technical and theoretical implications. 
  • Next-generation polyploid phylogenetics: rapid resolution of hybrid polyploid complexes using PacBio single-molecule sequencing. 
  • Next-generation sequencing of the human olfactory receptors. 
  • No evidence for maternal-fetal microchimerism in infantile hemangioma: a molecular genetic investigation. 
  • No evidence for the presence of genetic variants predisposing to psychotic disorders on the non-deleted 22q11.2 allele of VCFS patients. 
  • Nonmuscle myosin II generates forces that transmit tension and drive contraction in multiple tissues during dorsal closure. 
  • Novel Insights into Chromosome Evolution in Birds, Archosaurs, and Reptiles. 
  • Novel associations of UDP-glucuronosyltransferase 2B gene variants with prostate cancer risk in a multiethnic study. 
  • Novel forms of structural integration between microbes and a hydrothermal vent gastropod from the Indian Ocean. 
  • Nucleotide pool imbalance and adenosine deaminase deficiency induce alterations of N-region insertions during V(D)J recombination. 
  • OTX2 mutations contribute to the otocephaly-dysgnathia complex. 
  • Of urchins and men: evolution of an alternative splicing unit in fibroblast growth factor receptor genes. 
  • Olfactory Receptor Subgenomes Linked with Broad Ecological Adaptations in Sauropsida. 
  • Oncogenic CARD11 mutations in human diffuse large B cell lymphoma. 
  • One nutritional symbiosis begat another: phylogenetic evidence that the ant tribe Camponotini acquired Blochmannia by tending sap-feeding insects. 
  • Ontogenetic Differences in Dietary Fat Influence Microbiota Assembly in the Zebrafish Gut. 
  • Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity. 
  • Organellar phylogenomics of an emerging model system: Sphagnum (peatmoss). 
  • Organization and evolutionary trajectory of the mating type (MAT) locus in dermatophyte and dimorphic fungal pathogens. 
  • Organization of the MASP2 locus and its expression profile in mouse and rat. 
  • Origin and evolution of HIV-1 in breast milk determined by single-genome amplification and sequencing. 
  • Outbreak of febrile respiratory illness associated with human adenovirus type 14p1 in Gansu Province, China. 
  • Ovarian cycling and reproductive state shape the vaginal microbiota in wild baboons. 
  • POWRS: position-sensitive motif discovery. 
  • Paired-end analysis of transcription start sites in Arabidopsis reveals plant-specific promoter signatures. 
  • Parallel acceleration of evolutionary rates in symbiont genes underlying host nutrition. 
  • Partial resistance to infection by R5X4 primary HIV type 1 isolates in an exposed-uninfected individual homozygous for CCR5 32-base pair deletion. 
  • Patterns of gut bacterial colonization in three primate species. 
  • Patterns of nucleotide diversity in two species of Mimulus are affected by mating system and asymmetric introgression. 
  • Peatmoss (Sphagnum) diversification associated with Miocene Northern Hemisphere climatic cooling? 
  • Performance assessment of promoter predictions on ENCODE regions in the EGASP experiment. 
  • Phospholipid-binding protein Cts1 controls septation and functions coordinately with calcineurin in Cryptococcus neoformans. 
  • Phylogenetic analyses of eurotiomycetous endophytes reveal their close affinities to Chaetothyriales, Eurotiales, and a new order - Phaeomoniellales. 
  • Phylogenetic analyses of morphological evolution in the gametophyte and sporophyte generations of the moss order Hookeriales (Bryopsida). 
  • Phylogenetic analysis identifies a 'Candidatus Phytoplasma oryzae'-related strain associated with yellow leaf disease of areca palm (Areca catechu L.) in India. 
  • Phylogenetic analysis of feline immunodeficiency virus in feral and companion domestic cats of New Zealand. 
  • Phylogenetic analysis of viridans group streptococci causing endocarditis. 
  • Phylogenetic comparison of protein-coding versus ribosomal RNA-coding sequence data: a case study of the Lecanoromycetes (Ascomycota). 
  • Phylogenetic evidence of a rapid radiation of pleurocarpous mosses (Bryophyta). 
  • Phylogenetic reassessment of the Teloschistaceae (lichen-forming Ascomycota, Lecanoromycetes). 
  • Phylogenetic relationships of Rhizoctonia fungi within the Cantharellales. 
  • Phylogenetic relationships, host affinity, and geographic structure of boreal and arctic endophytes from three major plant lineages. 
  • Phylogenetic relationships, morphological incongruence, and geographic speciation in the fontinalaceae (Bryophyta). 
  • Phylogeny and biogeography of the American live oaks (Quercus subsection Virentes): a genomic and population genetics approach. 
  • Phylogeny of twenty Thermus isolates constructed from 16S rRNA gene sequence data. 
  • Phylogeny, biogeography, and processes of molecular differentiation in Quercus subgenus Quercus (Fagaceae). 
  • Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci. 
  • Physical maps for genome analysis of serotype A and D strains of the fungal pathogen Cryptococcus neoformans. 
  • Picoliter DNA sequencing chemistry on an electrowetting-based digital microfluidic platform. 
  • Plant host and soil origin influence fungal and bacterial assemblages in the roots of woody plants. 
  • Plasmodium falciparum field isolates from areas of repeated emergence of drug resistant malaria show no evidence of hypermutator phenotype. 
  • Polymorphisms in Fibronectin Binding Proteins A and B among Staphylococcus aureus Bloodstream Isolates Are Not Associated with Arthroplasty Infection. 
  • Population history in Arabidopsis halleri using multilocus analysis. 
  • Positive selection driving diversification in plant secondary metabolism. 
  • Positive selection on MMP3 regulation has shaped heart disease risk. 
  • Practical considerations in the clinical application of whole-exome sequencing. 
  • Precise localization of the FHIT gene to the common fragile site at 3p14.2 (FRA3B) and characterization of homozygous deletions within FRA3B that affect FHIT transcription in tumor cell lines. 
  • Precise spatio-temporal regulation of the anthocyanin biosynthetic pathway leads to petal spot formation in Clarkia gracilis (Onagraceae). 
  • Predicting demographic group structures based on DNA sequence data. 
  • Prediction of genome-wide DNA methylation in repetitive elements. 
  • Pregnancy without progesterone in horses defines a second endogenous biopotent progesterone receptor agonist, 5α-dihydroprogesterone. 
  • Preparation, resonance assignment, and preliminary dynamics characterization of residue specific 13C/15N-labeled elongated DNA for the study of sequence-directed dynamics by NMR. 
  • Prevalence and characterization of metallo-beta-lactamases in clinical isolates of pseudomonas aeruginosa. 
  • Prevalence and patterns of antifolate and chloroquine drug resistance markers in Plasmodium vivax across Pakistan. 
  • Prevalence of deleterious ATM germline mutations in gastric cancer patients. 
  • Promoter prediction on a genomic scale--the Adh experience. 
  • Purification, cDNA sequence, and tissue distribution of rat uroguanylin. 
  • Putative digenic inheritance of heterozygous RP1L1 and C2orf71 null mutations in syndromic retinal dystrophy. 
  • Quantitating the multiplicity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants. 
  • RGSZ1, a Gz-selective regulator of G protein signaling whose action is sensitive to the phosphorylation state of Gzalpha. 
  • Rapid DNA sequencing of more than 1000 bases per run by capillary electrophoresis using replaceable linear polyacrylamide solutions. 
  • Rapid mapping of insertional mutations to probe cell wall regulation in Cryptococcus neoformans. 
  • Rare codons regulate KRas oncogenesis. 
  • Rare variants in CFI, C3 and C9 are associated with high risk of advanced age-related macular degeneration. 
  • Reading, writing, and modulating genetic information with boranophosphate mimics of nucleotides, DNA, and RNA. 
  • Realizing the opportunities of genomics in health care. 
  • Recombination between palindromes P5 and P1 on the human Y chromosome causes massive deletions and spermatogenic failure. 
  • Reconstructing the temporal ordering of biological samples using microarray data. 
  • Regional clustering of shared neutralization determinants on primary isolates of clade C human immunodeficiency virus type 1 from South Africa. 
  • Regulation of basement membrane-reactive B cells in BXSB, (NZBxNZW)F1, NZB, and MRL/lpr lupus mice. 
  • Regulation of cytochrome c oxidase subunit 1 (COX1) expression in Cryptococcus neoformans by temperature and host environment. 
  • Relaxed constraint and evolutionary rate variation between basic helix-loop-helix floral anthocyanin regulators in Ipomoea. 
  • Remarkably little variation in proteins encoded by the Y chromosome's single-copy genes, implying effective purifying selection. 
  • Removal of polymerase-produced mutant sequences from PCR products. 
  • Repeated phenotypic changes highlight molecular targets of convergent evolution. 
  • Replication of the recessive STBMS1 locus but with dominant inheritance. 
  • Report and abstracts of the sixth international workshop on human chromosome 1 mapping 2000. Iowa City, Iowa, USA. 30 September-3 October 2000. 
  • Report and abstracts of the third international workshop on human chromosome 1 mapping 1997. 
  • Report of the fifth international workshop on human chromosome 1 mapping 1999. 
  • Resistance mechanisms for the Bruton's tyrosine kinase inhibitor ibrutinib. 
  • Resistance mutations at the lipid substrate binding site of Plasmodium falciparum protein farnesyltransferase. 
  • Return of chloroquine-susceptible falciparum malaria in Malawi was a reexpansion of diverse susceptible parasites. 
  • Return of widespread chloroquine-sensitive Plasmodium falciparum to Malawi. 
  • Reversion and T cell escape mutations compensate the fitness loss of a CD8+ T cell escape mutant in their cognate transmitted/founder virus. 
  • Revolution and renaissance. 
  • RoBo-1, a novel member of the urokinase plasminogen activator receptor/CD59/Ly-6/snake toxin family selectively expressed in rat bone and growth plate cartilage. 
  • Role of Cdc42p in pheromone-stimulated signal transduction in Saccharomyces cerevisiae. 
  • Role of Escherichia coli DNA polymerase I in conferring viability upon the dnaN159 mutant strain. 
  • SCAR, a WASP-related protein, isolated as a suppressor of receptor defects in late Dictyostelium development. 
  • SNPselector: a web tool for selecting SNPs for genetic association studies. 
  • SVA: software for annotating and visualizing sequenced human genomes. 
  • Sakacin P non-producing Lactobacillus sakei strains contain homologues of the sakacin P gene cluster. 
  • Screening of 181 Patients With Antibody Deficiency for Deficiency of Adenosine Deaminase 2 Sheds New Light on the Disease in Adulthood. 
  • Screening the human exome: a comparison of whole genome and whole transcriptome sequencing. 
  • Selective sweeps and intercontinental migration in the cosmopolitan moss Ceratodon purpureus (Hedw.) Brid. 
  • SeqSIMLA2: simulating correlated quantitative traits accounting for shared environmental effects in user-specified pedigree structure. 
  • Sequence analysis of a cDNA for lysyl hydroxylase isolated from human skin fibroblasts from a normal donor: differences from human placental lysyl hydroxylase cDNA. 
  • Sequence features of DNA binding sites reveal structural class of associated transcription factor. 
  • Sequence specificity incompletely defines the genome-wide occupancy of Myc. 
  • Sequence variants in the transforming growth beta-induced factor (TGIF) gene are not associated with high myopia. 
  • Sequence-based differentiation of strains in the Mycobacterium avium complex. 
  • Sequencing analysis of the ATOH7 gene in individuals with optic nerve hypoplasia. 
  • Sequencing and analysis of genomic fragments from the NF1 locus. 
  • Sequencing studies in human genetics: design and interpretation. 
  • Sequencing the mouse Y chromosome reveals convergent gene acquisition and amplification on both sex chromosomes. 
  • Short communication: HIV type 1 subtype C variants transmitted through the bottleneck of breastfeeding are sensitive to new generation broadly neutralizing antibodies directed against quaternary and CD4-binding site epitopes. 
  • Short report: rare Plasmodium falciparum merozoite surface protein 1 19-kda (msp-1(19)) haplotypes identified in Mali using high-throughput genotyping methods. 
  • Signaling activities of the Drosophila wingless gene are separately mutable and appear to be transduced at the cell surface. 
  • Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays. 
  • Slow algae, fast fungi: exceptionally high nucleotide substitution rate differences between lichenized fungi Omphalina and their symbiotic green algae Coccomyxa. 
  • SoDA: implementation of a 3D alignment algorithm for inference of antigen receptor recombinations. 
  • Social networks predict gut microbiome composition in wild baboons. 
  • Somatic Mutation Allelic Ratio Test Using ddPCR (SMART-ddPCR): An Accurate Method for Assessment of Preferential Allelic Imbalance in Tumor DNA. 
  • SpA: web-accessible spectratype analysis: data management, statistical analysis and visualization. 
  • Species delimitation and biogeography of a southern hemisphere liverwort clade, Frullania subgenus Microfrullania (Frullaniaceae, Marchantiophyta). 
  • Species discovery and validation in a cryptic radiation of endangered primates: coalescent-based species delimitation in Madagascar's mouse lemurs. 
  • Specific polymorphisms in hepatitis C virus genotype 3 core protein associated with intracellular lipid accumulation. 
  • Spliceosome-mediated RNA trans-splicing as a tool for gene therapy. 
  • Stabilization of microsatellite sequences by variant repeats in the yeast Saccharomyces cerevisiae. 
  • Statistical inference of sequence-dependent mutation rates. 
  • Strain-Specific V3 and CD4 Binding Site Autologous HIV-1 Neutralizing Antibodies Select Neutralization-Resistant Viruses. 
  • Stratified whole genome linkage analysis of Chiari type I malformation implicates known Klippel-Feil syndrome genes as putative disease candidates. 
  • Structure, function, and phylogeny of the mating locus in the Rhizopus oryzae complex. 
  • Structure-guided reprogramming of serine recombinase DNA sequence specificity. 
  • Study of a US cohort supports the role of ZNF644 and high-grade myopia susceptibility. 
  • Sturge-Weber syndrome and port-wine stains caused by somatic mutation in GNAQ. 
  • Superoxide dismutase influences the virulence of Cryptococcus neoformans by affecting growth within macrophages. 
  • Surface-enhanced Raman gene probes. 
  • Survey of variation in human transcription factors reveals prevalent DNA binding changes. 
  • Synchronous luminescence: a new detection technique for multiple fluorescent probes used for DNA sequencing. 
  • Syndrome of hepatic cirrhosis, dystonia, polycythemia, and hypermanganesemia caused by mutations in SLC30A10, a manganese transporter in man. 
  • TM4SF20 ancestral deletion and susceptibility to a pediatric disorder of early language delay and cerebral white matter hyperintensities. 
  • TMEM237 is mutated in individuals with a Joubert syndrome related disorder and expands the role of the TMEM family at the ciliary transition zone. 
  • TNXB mutations can cause vesicoureteral reflux. 
  • Targeted resequencing identifies PTCH1 as a major contributor to ocular developmental anomalies and extends the SOX2 regulatory network. 
  • Targeted sequencing in chromosome 17q linkage region identifies familial glioma candidates in the Gliogene Consortium. 
  • Telaprevir for previously untreated chronic hepatitis C virus infection. 
  • Temporal Stability of Molecular Diversity Measures in Natural Populations of Drosophila pseudoobscura and Drosophila persimilis. 
  • Testing Rare-Variant Association without Calling Genotypes Allows for Systematic Differences in Sequencing between Cases and Controls. 
  • Testing the effect of rare compound-heterozygous and recessive mutations in case--parent sequencing studies. 
  • Testing the hypothesis of a recombinant origin of human immunodeficiency virus type 1 subtype E. 
  • The 1.4-Mb CMT1A duplication/HNPP deletion genomic region reveals unique genome architectural features and provides insights into the recent evolution of new genes. 
  • The A581G Mutation in the Gene Encoding Plasmodium falciparum Dihydropteroate Synthetase Reduces the Effectiveness of Sulfadoxine-Pyrimethamine Preventive Therapy in Malawian Pregnant Women. 
  • The AZFc region of the Y chromosome features massive palindromes and uniform recurrent deletions in infertile men. 
  • The Arabidopsis NPR1 gene that controls systemic acquired resistance encodes a novel protein containing ankyrin repeats. 
  • The Cryptococcus neoformans genome sequencing project. 
  • The DNA sequence and biological annotation of human chromosome 1. 
  • The DNA sequence of the human X chromosome. 
  • The Danish 1905 cohort: a genetic-epidemiological nationwide survey. 
  • The GroES antigens of Mycobacterium avium and Mycobacterium paratuberculosis. 
  • The LabFlow system for workflow management in large scale biology research laboratories. 
  • The MedSeq Project: a randomized trial of integrating whole genome sequencing into clinical medicine. 
  • The RAM1 gene encoding a protein-farnesyltransferase beta-subunit homologue is essential in Cryptococcus neoformans. 
  • The RNase P associated with HeLa cell mitochondria contains an essential RNA component identical in sequence to that of the nuclear RNase P. 
  • The Undiagnosed Diseases Network: Accelerating Discovery about Health and Disease. 
  • The adaptive radiation of lichen-forming Teloschistaceae is associated with sunscreening pigments and a bark-to-rock substrate shift. 
  • The calmodulin-dependent protein phosphatase catalytic subunit (calcineurin A) is an essential gene in Aspergillus nidulans. 
  • The calmodulin-dependent protein phosphatase catalytic subunit (calcineurin A) is an essential gene in Aspergillus nidulans. 
  • The characterization of twenty sequenced human genomes. 
  • The cyanide-resistant alternative oxidases from the fungi Pichia stipitis and Neurospora crassa are monomeric and lack regulatory features of the plant enzyme. 
  • The dangers of diagnostic monopolies. 
  • The differential expression of wound-inducible lipoxygenase genes in soybean leaves. 
  • The distribution of feline immunodeficiency virus in tissue compartments of feral domestic cats. 
  • The distribution of variation in regulatory gene segments, as present in MHC class II promoters. 
  • The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). 
  • The effects of Cenozoic global change on squirrel phylogeny. 
  • The evolutionary forest algorithm. 
  • The evolutionary history of ferns inferred from 25 low-copy nuclear genes. 
  • The extent and genetic basis of phenotypic divergence in life history traits in Mimulus guttatus. 
  • The founding of Mauritian endemic coffee trees by a synchronous long-distance dispersal event. 
  • The genetic landscape of mutations in Burkitt lymphoma. 
  • The genetic landscape of the childhood cancer medulloblastoma. 
  • The genome of the basidiomycetous yeast and human pathogen Cryptococcus neoformans. 
  • The genome of the sea urchin Strongylocentrotus purpuratus. 
  • The genomic landscape of mantle cell lymphoma is related to the epigenetically determined chromatin state of normal B cells. 
  • The lemur revolution starts now: the genomic coming of age for a non-model organism. 
  • The mammalian Rad24 homologous to yeast Saccharomyces cerevisiae Rad24 and Schizosaccharomyces pombe Rad17 is involved in DNA damage checkpoint. 
  • The near-naked hairless (Hr(N)) mutation disrupts hair formation but is not due to a mutation in the Hairless coding region. 
  • The prevalence and regulation of antisense transcripts in Schizosaccharomyces pombe. 
  • The reference genome sequence of Saccharomyces cerevisiae: then and now. 
  • The smallest membrane anchoring subunit (QPs3) of bovine heart mitochondrial succinate-ubiquinone reductase. Cloning, sequencing, topology, and Q-binding domain. 
  • The spatial scale of genetic subdivision in populations of Ifremeria nautilei, a hydrothermal-vent gastropod from the southwest Pacific. 
  • The trehalose synthesis pathway is an integral part of the virulence composite for Cryptococcus gattii. 
  • The utility of PacBio circular consensus sequencing for characterizing complex gene families in non-model organisms. 
  • The utility of the traditional medical genetics diagnostic evaluation in the context of next-generation sequencing for undiagnosed genetic disorders. 
  • The white gene of the tephritid fruit fly Bactrocera tryoni is characterized by a long untranslated 5' leader and a 12kb first intron. 
  • The yeast carboxyl-terminal repeat domain kinase CTDK-I is a divergent cyclin-cyclin-dependent kinase complex. 
  • Theoretical and practical advances in genome halving. 
  • Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. 
  • Thymus transplantation restores the repertoires of forkhead box protein 3 (FoxP3)+ and FoxP3- T cells in complete DiGeorge anomaly. 
  • Tigecycline therapy for carbapenem-resistant Klebsiella pneumoniae (CRKP) bacteriuria leads to tigecycline resistance. 
  • Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi. 
  • Toward a Wolbachia multilocus sequence typing system: discrimination of Wolbachia strains present in Drosophila species. 
  • Transcriptome analysis of mouse stem cells and early embryos. 
  • Transcriptome-mining for single-copy nuclear markers in ferns. 
  • Transient compartmentalization of simian immunodeficiency virus variants in the breast milk of african green monkeys. 
  • Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing. 
  • Trilateral retinoblastoma in a patient with Peutz-Jeghers syndrome. 
  • Ultra-rare genetic variation in common epilepsies: a case-control sequencing study. 
  • Uncovering the roles of rare variants in common disease through whole-genome sequencing. 
  • Unique expression of a sporophytic character on the gametophytes of notholaenid ferns (Pteridaceae). 
  • Use of bioinformatic tools in primer validation. 
  • Using ERDS to infer copy-number variants in high-coverage genomes. 
  • Using PEBBLE for the evolutionary analysis of serially sampled molecular sequences. 
  • Using a multigene phylogenetic analysis to assess generic delineation and character evolution in Verrucariaceae (Verrucariales, Ascomycota). 
  • Variable but persistent coexistence of Prochlorococcus ecotypes along temperature gradients in the ocean's surface mixed layer. 
  • Variant ASGR1 Associated with a Reduced Risk of Coronary Artery Disease. 
  • Variants in melanocortin 1 receptor gene contribute to risk of melanoma--a direct sequencing analysis in a Texas population. 
  • Variation in the circumsporozoite protein of Plasmodium falciparum: vaccine development implications. 
  • Vibrio metoecus sp. nov., a close relative of Vibrio cholerae isolated from coastal brackish ponds and clinical specimens. 
  • Vironome of Kaposi sarcoma associated herpesvirus-inflammatory cytokine syndrome in an AIDS patient reveals co-infection of human herpesvirus 8 and human herpesvirus 6A. 
  • Virulence determinants in the obligate intracellular pathogen Chlamydia trachomatis revealed by forward genetic approaches. 
  • WASABI: an automated sequence processing system for multigene phylogenies. 
  • West Nile virus in Mexico: evidence of widespread circulation since July 2002. 
  • Whole genome re-sequencing to identify suppressor mutations of mutant and foreign Escherichia coli FtsZ. 
  • Whole genome sequencing identifies circulating Beijing-lineage Mycobacterium tuberculosis strains in Guatemala and an associated urban outbreak. 
  • Whole genome sequencing in patients with retinitis pigmentosa reveals pathogenic DNA structural changes and NEK2 as a new disease gene. 
  • Whole-exome sequencing implicates UBE3D in age-related macular degeneration in East Asian populations. 
  • Whole-genome analyses resolve early branches in the tree of life of modern birds. 
  • Whole-genome fingerprint of the DNA methylome during human B cell differentiation. 
  • Whole-genome sequencing of a single proband together with linkage analysis identifies a Mendelian disease gene. 
  • Wide variation in the multiplicity of HIV-1 infection among injection drug users. 
  • Yantar, a conserved arginine-rich protein is involved in Drosophila hemocyte development. 
  • Yeast diversity sampling on the San Juan Islands reveals no evidence for the spread of the Vancouver Island Cryptococcus gattii outbreak to this locale. 
  • Young Investigator Challenge: Molecular testing in noninvasive follicular thyroid neoplasm with papillary-like nuclear features. 
  • ZNHIT3 is defective in PEHO syndrome, a severe encephalopathy with cerebellar granule neuron loss. 
  • [PCR amplification and structural analysis of two paralogous rat estrogen sulfotransferase genes] 
  • alphaSU2, an epithelial integrin that binds laminin in the sea urchin embryo. 
  • cDNA cloning and sequencing of Ca2+/calmodulin-dependent protein kinase IIalpha subunit and its mRNA expression in diisopropyl phosphorofluoridate (DFP)-treated hen central nervous system. 
  • cnvCapSeq: detecting copy number variation in long-range targeted resequencing data. 
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  Keywords of People

  • Alberts, Susan C., Robert F. Durden Professor of Biology, Duke Science & Society
  • Bejsovec, Amy, Associate Professor of Biology, Biology
  • Berchuck, Andrew, James M. Ingram Professor of Gynecologic Oncology, Obstetrics and Gynecology, Gynecologic Oncology
  • Buckley, Rebecca Hatcher, James Buren Sidbury Professor of Pediatrics, in the School of Medicine, Immunology
  • Cunningham, Coleen Kathryn, Professor of Pediatrics, Pathology
  • Davis, Erica Ellen, Associate Professor of Pediatrics, Cell Biology
  • Erickson, Harold Paul, James B. Duke Professor of Cell Biology, Cell Biology
  • Gordan, Raluca Mihaela, Assistant Professor in Biostatistics & Bioinformatics, Computer Science
  • Gunn, Michael Dee, Professor of Medicine, Immunology
  • Hartemink, Alexander J., Professor in the Department of Computer Science, Computer Science
  • Hogan, Brigid L. M., George Barth Geller Professor, Cell Biology
  • Li, Yi-Ju, Associate Professor of Biostatistics and Bioinformatics, Biostatistics & Bioinformatics
  • Liu, Yutao, Adjunct Assistant Professor in the Department of Medicine, Medicine, Medical Genetics
  • McLendon, Roger Edwin, Professor of Pathology, Pathology
  • Mitchell-Olds, Thomas, Newman Ivey White Professor of Biology in Trinity College of Arts and Sciences, Biology
  • Noor, Mohamed A. F., Professor of Biology, Duke Science & Society
  • Premont, Richard Thomas, Associate Professor in Medicine, Medicine, Gastroenterology
  • Roth, V. Louise, Professor in the Department of Biology, Evolutionary Anthropology
  • Shinohara, Mari L., Associate Professor of Immunology, Immunology
  • Wray, Gregory Allan, Professor of Biology, Evolutionary Anthropology
  • Yan, Hai, Henry S. Friedman Professor of Neuro-Oncology in the School of Medicine, Pathology
  • Yoder, Anne Daphne, Braxton Craven Professor of Evolutionary Biology, Duke University