Search results
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Title
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Comparative phylogenetic studies on Schistosoma japonicum and its snail intermediate host Oncomelania hupensis : origins, dispersal and coevolution
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Author
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Attwood, Stephen W., Ibaraki, Motomu, Saitoh, Yasuhide, Janies, Daniel
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Subjects--Topical
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Parasites, Coevolution, Public health
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Description
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Schistosoma japonicum causes major public health problems in China and the Philippines; this parasite, which is transmitted by freshwater snails of the species Oncomelania hupen- sis, causes the disease intestinal schistosomiasis in humans and cat...
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Title
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Modeling Plasmodium falciparum diagnostic test sensitivity using machine learning with histidine-rich protein 2 variants
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Author
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Ford, Colby, Janies, Daniel, Alemayehu, Gezahegn, Lo, Eugenia, Blackburn, Kayla, Lopez, Karen, Dieng, Cheikh Cambel, Golassa, Lemu
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Subjects--Topical
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Malaria, Plasmodium falciparum
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Description
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Malaria, predominantly caused by Plasmodium falciparum, poses one of largest and most durable health threats in the world. Previously, simplistic regression-based models have been created to characterize malaria rapid diagnostic test performance, ...
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Title
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FLAVi : an enhanced annotator for viral genomes of Flaviviridae
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Author
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Machado, Denis Jacob, Schneider, Adriano, Guirales, Sayal, Janies, Daniel
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Subjects--Topical
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Viruses, Phylogeny
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Description
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Responding to the ongoing and severe public health threat of viruses of the family Flaviviridae, including dengue, hepatitis C, West Nile, yellow fever, and Zika, demands a greater understanding of how these viruses emerge and spread. Updated phyl...
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Title
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Fundamental evolution of all Orthocoronavirinae including three deadly lineages descendent from Chiroptera-hosted coronaviruses : SARS-CoV, MERS-CoV and SARS-CoV-2
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Author
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Machado, Denis Jacob, Scott, Rachel, Guirales, Sayal, Janies, Daniel
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Subjects--Topical
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Coronaviruses, SARS (Disease), MERS (Disease), COVID-19 (Disease)
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Description
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The severe acute respiratory syndrome coronavirus (SARS-CoV) emerged in humans in 2002. Despite reports showing Chiroptera as the original animal reservoir of SARS-CoV, many argue that Carnivora-hosted viruses are the most likely origin. The emerg...
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Title
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Fundamentals of genomic epidemiology, lessons learned from the coronavirus disease 2019 (COVID-19) pandemic, and new directions
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Author
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Machado, Denis Jacob, White, Richard Allen, III, Kofsky, Janice, Janies, Daniel
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Subjects--Topical
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COVID-19 (Disease), Epidemiology
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Description
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The coronavirus disease 2019 (COVID-19) pandemic was one of the significant causes of death worldwide in 2020. The disease is caused by severe acute coronavirus syndrome (SARS) coronavirus 2 (SARS-CoV-2), an RNA virus of the subfamily Orthocoronav...
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Title
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Phylogeny of echinoderm hemoglobins
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Author
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Janies, Daniel, Linchangco, Gregorio V., Jr.
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Date Created
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2015
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Subjects--Topical
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Genomics, Biology
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Description
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Background Recent genomic information has revealed that neuroglobin and cytoglobin are the two principal lineages of vertebrate hemoglobins, with the latter encompassing the familiar myoglobin and alpha-globin/beta-globin tetramer hemoglobin, and ...
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Title
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EchinoDB, an application for comparative transcriptomics of deeply-sampled clades of echinoderms
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Author
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Janies, Daniel, Witter, Zachary, Linchangco, Gregorio V., Jr.
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Date Created
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2016
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Subjects--Topical
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Genomics, Biology
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Description
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Background: One of our goals for the echinoderm tree of life project (http://echinotol.org) is to identify orthologs suitable for phylogenetic analysis from next-generation transcriptome data. The current dataset is the largest assembled for echin...
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Title
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Zika virus : medical countermeasure development challenges
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Author
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Janies, Daniel, Damodaran, Lambodhar, Schneider, Adriano
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Date Created
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2016
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Subjects--Topical
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Communicable diseases, Zika virus
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Description
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Introduction Reports of high rates of primary microcephaly and Guillain-Barre syndrome associated with Zika virus infection in French Polynesia and Brazil have raised concerns that the virus circulating in these regions is a rapidly developing neu...
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Title
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A new strategy to infer circularity applied to four new complete frog mitogenomes
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Author
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Machado, Denis Jacob, Janies, Daniel, Brouwer, Cory, Grant, Taran
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Date Created
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2018
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Subjects--Topical
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Genomics, Amphibians, Bioinformatics
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Description
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We applied a novel strategy to infer sequence circularity and complete assembly of four mitochondrial genomes (mitogenomes) of the frog families Bufonidae (Melanophryniscus moreirae), Dendrobatidae (Hyloxalus subpunctatus and Phyllobates terribili...
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Title
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Integration of phylogenomics and molecular modeling reveals lineage-specific diversification of toxins in scorpions
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Author
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Janies, Daniel, Rush, Nathaniel, Witter, Zachary, Williams, John
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Date Created
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2018
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Subjects--Topical
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Genomics, Biology
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Description
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Scorpions have evolved a variety of toxins with a plethora of biological targets, but characterizing their evolution has been limited by the lack of a comprehensive phylogenetic hypothesis of scorpion relationships grounded in modern, genome-scale...
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Title
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Sequence-based identification of Anopheles species in eastern Ethiopia
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Author
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Janies, Daniel, Lopez, Karen
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Date Created
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2019
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Subjects--Topical
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Communicable diseases, Malaria
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Description
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Background: The recent finding of a typically non-African Anopheles species in eastern Ethiopia emphasizes the need for detailed species identification and characterization for effective malaria vector surveillance. Molecular approaches increase t...
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Title
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Updated phylogeny of chikungunya virus suggests lineage-specific RNA architecture
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Author
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Janies, Daniel
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Date Created
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2019
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Subjects--Topical
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Communicable diseases, Biology
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Description
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Chikungunya virus (CHIKV), a mosquito-borne alphavirus of the family Togaviridae, has recently emerged in the Americas from lineages from two continents: Asia and Africa. Historically, CHIKV circulated as at least four lineages worldwide with both...