نتایج جستجو برای: binning
تعداد نتایج: 1482 فیلتر نتایج به سال:
Metagenomics is the study of microbial ecology using genetics as an access point. We seek to understand the microbial communities in environments such as tidal pools, soil, mine runoff, or even the human gut, so that we can understand the impact that microbes have on our world and our health. Metagenomic analysis usually involves the determination of what species are present in a given sample, ...
Citation: Padilla CC, Bertagnolli AD, Bristow LA, Sarode N, Glass JB, Thamdrup B and Stewart FJ (2017) Metagenomic Binning Recovers a Transcriptionally Active Gammaproteobacterium Linking Methanotrophy to Partial Denitrification in an Anoxic Oxygen Minimum Zone. Front. Mar. Sci. 4:23. doi: 10.3389/fmars.2017.00023 Metagenomic Binning Recovers a Transcriptionally Active Gammaproteobacterium Link...
Because biological processes can result in different loci having different evolutionary histories, species tree estimation requires multiple loci from across multiple genomes. While many processes can result in discord between gene trees and species trees, incomplete lineage sorting (ILS), modeled by the multi-species coalescent, is considered to be a dominant cause for gene tree heterogeneity....
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In this paper we revisit the problem of classifier calibration, motivated by the issue that existing calibration methods ignore the problem attributes (i.e., they are univariate). These methods only use the estimated probability as input and ignore other important information, such as the original attributes of the problem. We propose a new calibration method inspired in binning-based methods i...
MOTIVATION With the rapid development of next-generation sequencing techniques, metagenomics, also known as environmental genomics, has emerged as an exciting research area that enables us to analyze the microbial environment in which we live. An important step for metagenomic data analysis is the identification and taxonomic characterization of DNA fragments (reads or contigs) resulting from s...
Patterns that resemble strongly skewed size distributions are frequently observed in ecology. A typical example represents tree size distributions of stem diameters. Empirical tests of ecological theories predicting their parameters have been conducted, but the results are difficult to interpret because the statistical methods that are applied to fit such decaying size distributions vary. In ad...
Successful discovery of therapeutic antibodies hinges on the identification of appropriate affinity binders targeting a diversity of molecular epitopes presented by the antigen. Antibody campaigns that yield such broad "epitope coverage" increase the likelihood of identifying candidates with the desired biological functions. Accordingly, epitope binning assays are employed in the early discover...
Mirarab et al. (Research Article, 12 December 2014, p. 1250463) introduced statistical binning to improve the signal in phylogenetic methods using the multispecies coalescent model. We show that all forms of binning-naïve, statistical, and weighted statistical-display poor performance and are statistically inconsistent in large regions of parameter space, unlike unbinned sequence data used with...
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