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Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database
TLDR
A new version of Artemis has been developed, which reads from and writes to a relational database, and allows users to annotate more complex, often large and fragmented, genome sequences. Expand
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GeneDB—an annotation database for pathogens
TLDR
GeneDB (http://www.genedb.org) is a genome database for prokaryotic and eukaryotic pathogens and closely related organisms. Expand
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New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq
Recent advances in high‐throughput sequencing present a new opportunity to deeply probe an organism's transcriptome. In this study, we used Illumina‐based massively parallel sequencing to gain newExpand
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The Systematic Functional Analysis of Plasmodium Protein Kinases Identifies Essential Regulators of Mosquito Transmission
Summary Although eukaryotic protein kinases (ePKs) contribute to many cellular processes, only three Plasmodium falciparum ePKs have thus far been identified as essential for parasite asexual bloodExpand
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A comprehensive evaluation of rodent malaria parasite genomes and gene expression
BackgroundRodent malaria parasites (RMP) are used extensively as models of human malaria. Draft RMP genomes have been published for Plasmodium yoelii, P. berghei ANKA (PbA) and P. chabaudi AS (PcAS).Expand
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The genome of the simian and human malaria parasite Plasmodium knowlesi
Plasmodium knowlesi is an intracellular malaria parasite whose natural vertebrate host is Macaca fascicularis (the ‘kra’ monkey); however, it is now increasingly recognized as a significant cause ofExpand
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Genome sequencing of chimpanzee malaria parasites reveals possible pathways of adaptation to human hosts
Plasmodium falciparum causes most human malaria deaths, having prehistorically evolved from parasites of African Great Apes. Here we explore the genomic basis of P. falciparum adaptation to humanExpand
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BamView: viewing mapped read alignment data in the context of the reference sequence
TLDR
Summary: BamView is an interactive Java application for visualizing the large amounts of data stored for sequence reads which are aligned against a reference genome sequence. Expand
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Ontologizing gene-expression microarray data: characterizing clusters with Gene Ontology
TLDR
An XML-based Java application is described that provides a function-oriented overview of the results of cluster analysis of gene-expression microarray data based on Gene Ontology terms and associations. Expand
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A new Plasmodium vivax reference sequence with improved assembly of the subtelomeres reveals an abundance of pir genes
Plasmodium vivax is now the predominant cause of malaria in the Asia-Pacific, South America and Horn of Africa. Laboratory studies of this species are constrained by the inability to maintain theExpand
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