Search results for "dolo"
showing 10 items of 4274 documents
An Artificial Bee Colony Approach for Classification of Remote Sensing Imagery
2018
This paper presents a novel Artificial Bee Colony (ABC) approach for supervised classification of remote sensing images. One proposes to apply an ABC algorithm to optimize the coefficients of the set of polynomial discriminant functions. We have experimented the proposed ABC-based classifier algorithm for a Landsat 7 ETM+ image database, evaluating the influence of the ABC model parameters on the classifier performances. Such ABC model parameters are: numbers of employed/onlooker/scout bees, number of epochs, and polynomial degree. One has compared the best ABC classifier Overall Accuracy (OA) with the performances obtained using a set of benchmark classifiers (NN, NP, RBF, and SVM). The re…
Automated Dental Identification with Lowest Cost Path-Based Teeth and Jaw Separation
2016
Abstract Teeth are some of the most resilient tissues of the human body. Because of their placement, teeth often yield intact indicators even when other metrics, such as finger prints and DNA, are missing. Forensics on dental identification is now mostly manual work which is time and resource intensive. Systems for automated human identification from dental X-ray images have the potential to greatly reduce the necessary efforts spent on dental identification, but it requires a system with high stability and accuracy so that the results can be trusted. This paper proposes a new system for automated dental X-ray identification. The scheme extracts tooth and dental work contours from the X-ray…
Engineering of a DNA Polymerase for Direct m6A Sequencing
2017
Methods for the detection of RNA modifications are of fundamental importance for advancing epitranscriptomics. N6-methyladenosine (m6A) is the most abundant RNA modification in mammalian mRNA and is involved in the regulation of gene expression. Current detection techniques are laborious and rely on antibody-based enrichment of m6A-containing RNA prior to sequencing, since m6A modifications are generally "erased" during reverse transcription (RT). To overcome the drawbacks associated with indirect detection, we aimed to generate novel DNA polymerase variants for direct m6A sequencing. Therefore, we developed a screen to evolve an RT-active KlenTaq DNA polymerase variant that sets a mark for…
Evolution of organic carbon pools and microbial diversity in hyperarid anthropogenic soils
2016
Abstract We investigated the organic carbon pools and the microbial diversity and activity in anthropogenic terraced soils in a desert area of Southern Peru to highlight how the introduction of agriculture influences carbon evolution and storage and genetic and functional diversity of soil microbiota over time. Five sites were selected considering soils cultivated since 5, 15, 20, 35 and 65 years, sampled along the profile depth (0–20 and 20–40 cm layer). Soil and microbial parameters comprised by organic carbon pools, microbial respiration, microbial community physiological profile (CLPP) and microbial diversity (PCR-DGGE) were determined. The results showed that the highest C concentratio…
CellMap visualizes protein-protein interactions and subcellular localization
2018
Many tools visualize protein-protein interaction (PPI) networks. The tool introduced here, CellMap, adds one crucial novelty by visualizing PPI networks in the context of subcellular localization, i.e. the location in the cell or cellular component in which a PPI happens. Users can upload images of cells and define areas of interest against which PPIs for selected proteins are displayed (by default on a cartoon of a cell). Annotations of localization are provided by the user or through our in-house database. The visualizer and server are written in JavaScript, making CellMap easy to customize and to extend by researchers and developers.
Outlook from the soil perspective of urban expansion and food security
2021
The use of soil as support for built-up areas represents only one of its several functions. Farmlands at the fringe of conurbations have more chance of being converted into built-up areas due to the favourable topography and the accessibility to existing infrastructure, being in the vicinity of urban areas. We analysed the global land-take during the period 2000–2014. The data are based on a global dataset describing the spatial evolution of human settlements using the Global Human Settlement Layer, which was derived from Landsat images collected in 1975, 1990, 2000 and 2014. Although the global land-take represents roughly 0.1% of the global terrestrial Earth, it affects 1% of the naturall…
Disease–Genes Must Guide Data Source Integration in the Gene Prioritization Process
2019
One of the main issues in detecting the genes involved in the etiology of genetic human diseases is the integration of different types of available functional relationships between genes. Numerous approaches exploited the complementary evidence coded in heterogeneous sources of data to prioritize disease-genes, such as functional profiles or expression quantitative trait loci, but none of them to our knowledge posed the scarcity of known disease-genes as a feature of their integration methodology. Nevertheless, in contexts where data are unbalanced, that is, where one class is largely under-represented, imbalance-unaware approaches may suffer a strong decrease in performance. We claim that …
Application of Graph Clustering and Visualisation Methods to Analysis of Biomolecular Data
2018
In this paper we present an approach based on integrated use of graph clustering and visualisation methods for semi-supervised discovery of biologically significant features in biomolecular data sets. We describe several clustering algorithms that have been custom designed for analysis of biomolecular data and feature an iterated two step approach involving initial computation of thresholds and other parameters used in clustering algorithms, which is followed by identification of connected graph components, and, if needed, by adjustment of clustering parameters for processing of individual subgraphs.
Next-generation sequencing: big data meets high performance computing
2017
The progress of next-generation sequencing has a major impact on medical and genomic research. This high-throughput technology can now produce billions of short DNA or RNA fragments in excess of a few terabytes of data in a single run. This leads to massive datasets used by a wide range of applications including personalized cancer treatment and precision medicine. In addition to the hugely increased throughput, the cost of using high-throughput technologies has been dramatically decreasing. A low sequencing cost of around US$1000 per genome has now rendered large population-scale projects feasible. However, to make effective use of the produced data, the design of big data algorithms and t…
SpCLUST: Towards a fast and reliable clustering for potentially divergent biological sequences
2019
International audience; This paper presents SpCLUST, a new C++ package that takes a list of sequences as input, aligns them with MUSCLE, computes their similarity matrix in parallel and then performs the clustering. SpCLUST extends a previously released software by integrating additional scoring matrices which enables it to cover the clustering of amino-acid sequences. The similarity matrix is now computed in parallel according to the master/slave distributed architecture, using MPI. Performance analysis, realized on two real datasets of 100 nucleotide sequences and 1049 amino-acids ones, show that the resulting library substantially outperforms the original Python package. The proposed pac…