Search results for "retrieval"

2014

The majority of next-generation sequencing short-reads can be properly aligned by leading aligners at high speed. However, the alignment quality can still be further improved, since usually not all reads can be correctly aligned to large genomes, such as the human genome, even for simulated data. Moreover, even slight improvements in this area are important but challenging, and usually require significantly more computational endeavor. In this paper, we present CUSHAW3, an open-source parallelized, sensitive and accurate short-read aligner for both base-space and color-space sequences. In this aligner, we have investigated a hybrid seeding approach to improve alignment quality, which incorp…

Comparative Cytogenetics Allows the Reconstruction of Human Chromosome History: The Case of Human Chromosome 13

2019

Comparative cytogenetics permits the identification of human chromosomal homologies and rearrangements between species, allowing the reconstruction of the history of each human chromosome. The aim of this work is to review evolutionary aspects regarding human chromosome 13. Classic and molecular cytogenetics using comparative banding, chromosome painting, and bacterial artificial chromosome (BAC) mapping can help us formulate hypotheses about chromosome ancestral forms; more recently, sequence data have been integrated as well. Although it has been previously shown to be conserved when compared to the ancestral primate chromosome, it shows a degree of rearrangements in some primate taxa; fu…

openSNP–A Crowdsourced Web Resource for Personal Genomics

2014

Genome-Wide Association Studies are widely used to correlate phenotypic traits with genetic variants. These studies usually compare the genetic variation between two groups to single out certain Single Nucleotide Polymorphisms (SNPs) that are linked to a phenotypic variation in one of the groups. However, it is necessary to have a large enough sample size to find statistically significant correlations. Direct-To-Consumer (DTC) genetic testing can supply additional data: DTC-companies offer the analysis of a large amount of SNPs for an individual at low cost without the need to consult a physician or geneticist. Over 100,000 people have already been genotyped through Direct-To-Consumer genet…

Relevance of Broad-Leaved Forest Stands for Maintaining Epiphytic Bryophyte Species and Functional Trait Diversity in Forest Landscape in Latvia

2021

Abstract Broad-leaved trees play an important role in supporting epiphyte richness in deciduous forests. In this study we tested which broad-leaved forest stands in terms of tree composition best predicted biodiversity in regard to bryophyte species number and their functional traits. The bryoflora was surveyed in 70 stands differing in dominant broad-leaved tree species. One circular plot with diameter 30 meters was established in each stand situated in different parts of Latvia. Fifty-three of the plots were located in stands identified as protected habitats of the European Union. In total, 82 bryophyte species were recorded. At plot level the total number of species ranged between 6 and …

New geo-portal for MODIS/SEVIRI image products with geolocation-based retrieval functionality

2015

A large number of remote sensing data sets have been collected in recent years by Earth observation instruments such as the moderate resolution imaging spectroradiometer (MODIS) aboard the Terra/Aqua satellite and the spinning enhanced visible and infrared imager (SEVIRI) aboard the geostationary platform Meteosat Second Generation. The advanced remote sensing products resulting from the analysis of these data are useful in a wide variety of appli- cations but require significant resources in terms of storage, retrieval, and analysis. Despite the wide availability of these MODIS/SEVIRI products, the data coming from these instruments are spread among different locations and retrieved from d…

A Semantic Web Approach for Geodata Discovery

2013

International audience; Currently, vast amounts of geospatial information are o ffered through OGC's services. However this information has limited formal semantics. The most common method to search for a dataset consists in matching keywords to metadata elements. By adding semantics to available descriptions we could use modern inference and reasoning mechanisms currently available in the SemanticWeb. In this paper we present a novel architecture currently in development in which we use state of the art triplestores as the backend of a CSW service. In our approach, each metadata record is considered an instance of a given class in a domain ontology. Our architecture also adds a spatial dat…

Use of Geospatial Analyses for Semantic Reasoning

2010

International audience; This work focuses on the integration of the spatial analyses for semantic reasoning in order to compute new axioms of an existing OWL ontology. To make it concrete, we have defined Spatial Built-ins, an extension of existing Built-ins of the SWRL rule language. It permits to run deductive rules with the help of a translation rule engine. Thus, the Spatial SWRL rules are translated to standard SWRL rules. Once the spatial functions of the Spatial SWRL rules are computed with the help of a spatial database system, the resulting translated rules are computed with a reasoning engine such as Racer, Jess or Pellet.

New Approaches to OCR for Early Printed Books

2020

Books printed before 1800 present major problems for OCR. One of the main obstacles is the lack of diversity of historical fonts in training data. The OCR-D project, consisting of book historians and computer scientists, aims to address this deficiency by focussing on three major issues. Our first target was to create a tool that identifies font groups automatically in images of historical documents. We concentrated on Gothic font groups that were commonly used in German texts printed in the 15th and 16th century: the well-known Fraktur and the lesser known Bastarda, Rotunda, Textura und Schwabacher. The tool was trained with 35,000 images and reaches an accuracy level of 98%. It can not on…

Spatial analysis of the relationship between mortality from cardiovascular and cerebrovascular disease and drinking water hardness

2004

Journal Article; Research Support, Non-U.S. Gov't; Reproduced with permission from Environmental Health Perspectives. Previously published scientific papers have reported a negative correlation between drinking water hardness and cardiovascular mortality. Some ecologic and case-control studies suggest the protective effect of calcium and magnesium concentration in drinking water. In this article we present an analysis of this protective relationship in 538 municipalities of Comunidad Valenciana (Spain) from 1991-1998. We used the Spanish version of the Rapid Inquiry Facility (RIF) developed under the European Environment and Health Information System (EUROHEIS) research project. The strateg…

Observable flavor violation from spontaneous lepton number breaking

2022

We propose a simple model of spontaneous lepton number violation with potentially large flavor violating decays, including the possibility that majoron emitting decays, such as $\mu \to e \, J$, saturate the experimental bounds. In this model the majoron is a singlet-doublet admixture. It generates a type-I seesaw for neutrino masses and contains also a vector-like lepton. As a by-product, the model can explain the anomalous $(g-2)_{\mu}$ in parts of its parameter space, where one expects that the branching ratio of the Higgs to muons is changed with respect to Standard Model expectations. However, the explanation of the muon $g-2$ anomaly would lead to tension with recent astrophysical bou…