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Expression profiling of the schizont and trophozoite stages of Plasmodium falciparum with a long-oligonucleotide microarray
BackgroundThe worldwide persistence of drug-resistant Plasmodium falciparum, the most lethal variety of human malaria, is a global health concern. The P. falciparum sequencing project has brought newExpand
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MicrobesOnline: an integrated portal for comparative and functional genomics
Since 2003, MicrobesOnline (http://www.microbesonline.org) has been providing a community resource for comparative and functional genome analysis. The portal includes over 1000 complete genomes ofExpand
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  • Open Access
The DOE Systems Biology Knowledgebase (KBase)
The U.S. Department of Energy Systems Biology Knowledgebase (KBase) is an open-source software and data platform designed to meet the grand challenge of systems biology — predicting and designingExpand
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  • Open Access
JColorGrid: software for the visualization of biological measurements
BackgroundTwo-dimensional data colourings are an effective medium by which to represent three-dimensional data in two dimensions. Such "color-grid" representations have found increasing use in theExpand
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JEvTrace: refinement and variations of the evolutionary trace in JAVA
BackgroundDetails of functional speciation within gene families can be difficult to identify using standard multiple sequence alignment (MSA) methods. The evolutionary trace (ET) was developed as aExpand
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Effects of genetic variation on the E. coli host-circuit interface.
Predictable operation of engineered biological circuitry requires the knowledge of host factors that compete or interfere with designed function. Here, we perform a detailed analysis of theExpand
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The Impact of Whole Genome Sequence Data on Drug Discovery—A Malaria Case Study
BackgroundIdentification and validation of a drug discovery target is a prominent step in drug development. In the post-genomic era it is possible to reevaluate the association of a gene with aExpand
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How many rare diseases are there?
A lack of robust knowledge of the number of rare diseases and the number of people affected by them limits the development of approaches to ameliorate the substantial cumulative burden of rareExpand
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Hydrogen peroxide-induced oxidative stress responses in Desulfovibrio vulgaris
Aifen Zhou,1,2 Zhili He,1,2 Alyssa M. Redding-Johanson,1,3 Aindrila Mukhopadhyay,1,3 Christopher L. Hemme,1,2 Marcin P. Joachimiak,1,4 Feng Luo,5 Ye Deng,1,2 Kelly S. Bender,1,6 Qiang He,1,7 Jay D.Expand
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  • Open Access
Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery
Electronic Health Record (EHR) systems typically define laboratory test results using the Laboratory Observation Identifier Names and Codes (LOINC) and can transmit them using Fast HealthcareExpand
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