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Article
Open AccessPublisher Correction: Dietary thiols accelerate aging of C. elegans
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Article
Open AccessDietary thiols accelerate aging of C. elegans
Glutathione (GSH) is the most abundant cellular antioxidant. As reactive oxygen species (ROS) are widely believed to promote aging and age-related diseases, and antioxidants can neutralize ROS, it follows that...
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Chapter and Conference Paper
Impact of Textual Data Augmentation on Linguistic Pattern Extraction to Improve the Idiomaticity of Extractive Summaries
The present work aims to develop a text summarisation system for financial texts with a focus on the fluidity of the target language. Linguistic analysis shows that the process of writing summaries should take...
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Protocol
Sharing Programming Resources Between Bio* Projects
Open-source software encourages computer programmers to reuse software components written by others. In evolutionary bioinformatics, open-source software comes in a broad range of programming languages, includ...
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Article
Open AccessMechanism of biofilm-mediated stress resistance and lifespan extension in C. elegans
Bacteria naturally form communities of cells known as biofilms. However the physiological roles of biofilms produced by non-pathogenic microbiota remain largely unknown. To assess the impact of a biofilm on ho...
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Article
Open AccessGlycogen controls Caenorhabditis elegans lifespan and resistance to oxidative stress
A high-sugar diet has been associated with reduced lifespan in organisms ranging from worms to mammals. However, the mechanisms underlying the harmful effects of glucose are poorly understood. Here we establis...
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Article
Transcriptional interactions suggest niche segregation among microorganisms in the human gut
The human gastrointestinal (GI) tract is the habitat for hundreds of microbial species, of which many cannot be cultivated readily, presumably because of the dependencies between species1. Studies of microbial co...
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Article
Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
Sequencing the microbial species present in complex metagenomic samples is made easier with a method that groups genes by co-abundance.
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Article
Addendum: Enterotypes of the human gut microbiome
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Protocol
Sharing Programming Resources Between Bio* Projects Through Remote Procedure Call and Native Call Stack Strategies
Open-source software (OSS) encourages computer programmers to reuse software components written by others. In evolutionary bioinformatics, OSS comes in a broad range of programming languages, including C/C++, ...
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Article
Erratum: Enterotypes of the human gut microbiome
Nature 473, 174–180 (2011) In this Letter, we inadvertently omitted Karsten Kristiansen, Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, DK-2200 Copenhagen, Denmark, from the MetaHIT Consor...
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Article
Enterotypes of the human gut microbiome
Our knowledge of species and functional composition of the human gut microbiome is rapidly increasing, but it is still based on very few cohorts and little is known about variation across the world. By combini...
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Article
Open AccessAn intuitive Python interface for Bioconductor libraries demonstrates the utility of language translators
Computer languages can be domain-related, and in the case of multidisciplinary projects, knowledge of several languages will be needed in order to quickly implements ideas. Moreover, each computer language has...
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Article
Relating genomic variation to drug response in childhood acute lymphoblastic leukemia by multiplexed targeted sequencing
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Article
Photoperiodic induction of synchronous flowering near the Equator
In tropical rainforests, 30–65% of tree species grow at densities of less than one individual per hectare1. At these low population densities, successful cross-pollination relies on synchronous flowering. In rain...
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Article
Open AccessBioconductor: open software development for computational biology and bioinformatics
The Bioconductor project is an initiative for the collaborative creation of extensible software for computational biology and bioinformatics. The goals of the project include: fostering collaborative developme...
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Article
Open AccessAlternative map** of probes to genes for Affymetrix chips
Short oligonucleotide arrays have several probes measuring the expression level of each target transcript. Therefore the selection of probes is a key component for the quality of measurements. However, once pr...
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Chapter
An R Package for Analyses of Affymetrix Oligonucleotide Arrays
We describe an extensible, interactive environment for data analysis and exploration of Affymetrix oligonucleotide array probe-level data. The software utilities provided with the Affymetrix analysis suite sum...
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Article
A new non-linear normalization method for reducing variability in DNA microarray experiments
Microarray data are subject to multiple sources of variation, of which biological sources are of interest whereas most others are only confounding. Recent work has identified systematic sources of variation th...
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Article
A recent history of forest fragmentation in southwestern Ivory Coast
This study provides monitoring and spatial analysis of forest fragmentation based on high-resolution remote sensing, in order to give a framework for assessing residual biodiversity in the Guiglo-Taï region. M...
