Ungulates are leading drivers of plant communities worldwide, with impacts linked to animal density, disturbance and vegetation structure, and site productivity. Many ecosystems have more than one ungulate species; however, few studies have specifically examined the combined effects of two or more species on plant communities. Species composition diverged among browser treatments, and changes were generally additive. Our results provide evidence that moderate browsing in forest openings can promote both herbaceous and woody plant diversity.
These results are consistent with the classic grazing-species richness curve, but have rarely been documented in forests. Brain Browser : distributed, web-based neurological data visualization. Recent years have seen massive, distributed datasets become the norm in neuroimaging research, and the methodologies used to analyze them have, in response, become more collaborative and exploratory.
Brain Browser leverages modern web technologies, such as WebGL, HTML5 and Web Workers, to visualize 3D surface and volumetric neuroimaging data in any modern web browser without requiring any browser plugins. It is thus trivial to integrate Brain Browser into any web-based platform.
Brain Browser is simple enough to produce a basic web-based visualization in a few lines of code, while at the same time being robust enough to create full-featured visualization applications. Brain Browser can dynamically load the data required for a given visualization, so no network bandwidth needs to be waisted on data that will not be used. Brain Browser 's integration into the standardized web platform also allows users to consider using 3D data visualization in novel ways, such as for data distribution, data sharing and dynamic online publications.
The emergence of Web 2. We propose a new browser security model to allow fine-grained access control in the client-side Web applications for secure mashup and user-generated contents. We propose a browser security model that is based on information-flow-based access control IBAC to overcome the dynamic nature of the client-side Web applications and to accurately determine the privilege of scripts in the event-driven programming model.
In the context of CNES balloon scientific campaigns and telemetry survey field, a generic telemetry processing product, called Telemetry Browser in the following, was developed reusing COTS, Java Components for most of them. Connection between those components relies on a software architecture based on parameter producers and parameter consumers.
The first one transmit parameter values to the second one which has registered to it. All of those producers and consumers can be spread over the network thanks to Corba, and over every kind of workstation thanks to Java. This gives a very powerful mean to adapt to constraints like network bandwidth, or workstations processing or memory.
It's also very useful to display and correlate at the same time information coming from multiple and various sources. An important point of this architecture is that the coupling between parameter producers and parameter consumers is reduced to the minimum and that transmission of information on the network is made asynchronously.
So, if a parameter consumer goes down or runs slowly, there is no consequence on the other consumers, because producers don't wait for their consumers to finish their data processing before sending it to other consumers. An other interesting point is that parameter producers, also called TelemetryServers in the following are generated nearly automatically starting from a telemetry description using Flavori component.
This work presents a pWeb - a new language and compiler for parallelization of client-side compute intensive web applications such as surgical simulations. The recently introduced HTML5 standard has enabled creating unprecedented applications on the web. Low performance of the web browser , however, remains the bottleneck of computationally intensive applications including visualization of complex scenes, real time physical simulations and image processing compared to native ones.
The new proposed language is built upon web workers for multithreaded programming in HTML5. The language compiler automatically generates an equivalent parallel script that complies with the HTML5 standard. A case study on realistic rendering for surgical simulations demonstrates enhanced performance with a compact set of instructions.
With the solution of key scientific and technical problems and development of instrumentation, the application of terahertz technology in various fields has been paid more and more attention. Owing to the unique characteristic advantages, terahertz technology has been showing a broad future in the fields of fast, non-damaging detections, as well as many other fields.
Terahertz technology combined with other complementary methods can be used to cope with many difficult practical problems which could not be solved before. One of the critical points for further development of practical terahertz detection methods depends on a good and reliable terahertz spectral database. We designed the main structure and main functions to fulfill practical requirements. The terahertz spectral database now includes more than items, and the spectral information was collected based on three sources: 1 collection and citation from some other abroad terahertz spectral databases; 2 collected from published literatures; and 3 spectral data measured in our laboratory.
The present paper introduced the basic structure and fundament functions of the terahertz spectral database developed in our laboratory. One of the key functions of this THz database is calculation of optical parameters.
Some optical parameters including absorption coefficient, refractive index, etc. The database search system can provide users convenient functions including user registration, inquiry, displaying spectral figures and molecular structures, spectral matching, etc. The THz database system provides an on-line searching function for registered users. Registered users can compare the input THz spectrum with the spectra of database, according to.
A Comparative Evaluation. A number of parameters that support the LMSs capabilities towards content personalization are presented and substantiated. These parameters constitute critical criteria for an exhaustive investigation of the personalization capabilities of the most popular open source LMSs. Results are comparatively shown and commented upon, thus highlighting a course of conduct for the implementation of new personalization methodologies for these LMSs, aligned at their existing infrastructure, to maintain support of the numerous educational institutions entrusting major part of their curricula to them.
Meanwhile, new capabilities arise as drawn from a more efficient description of the existing resources -especially when organized into widely available repositories- that lead to qualitatively advanced learner-oriented courses which would ideally meet the challenge of combining personification of demand and personalization of thematic content at once.
Winning by a neck: tall giraffes avoid competing with shorter browsers. With their vertically elongated body form, giraffes generally feed above the level of other browsers within the savanna browsing guild, despite having access to foliage at lower levels.
They ingest more leaf mass per bite when foraging high in the tree, perhaps because smaller, more selective browsers deplete shoots at lower levels or because trees differentially allocate resources to promote shoot growth in the upper canopy. We erected exclosures around individual Acacia nigrescens trees in the greater Kruger ecosystem, South Africa. After a complete growing season, we found no differences in leaf biomass per shoot across height zones in excluded trees but significant differences in control trees.
We conclude that giraffes preferentially browse at high levels in the canopy to avoid competition with smaller browsers. Our findings are analogous with those from studies of grazing guilds and demonstrate that resource partitioning can be driven by competition when smaller foragers displace larger foragers from shared resources. This provides the first experimental support for the classic evolutionary hypothesis that vertical elongation of the giraffe body is an outcome of competition within the browsing ungulate guild.
The UCSC genome browser : what every molecular biologist should know. Electronic data resources can enable molecular biologists to query and display many useful features that make benchwork more efficient and drive new discoveries. The UCSC Genome Browser provides a wealth of data and tools that advance one's understanding of genomic context for many species, enable detailed understanding of data, and provide the ability to interrogate regions of interest.
Researchers can also supplement the standard display with their own data to query and share with others. Effective use of these resources has become crucial to biological research today, and this unit describes some practical applications of the UCSC Genome Browser. Autoplot: a Browser for Science Data on the Web. Autoplot www. Autoplot uses a web browser metaphor to simplify use. The user specifies a parameter URL, for example a CDF file accessible via http with a parameter name appended, and the file resource is downloaded and the parameter is rendered in a scientifically meaningful way.
When data span multiple files, the user can use a file name template in the URL to aggregate combine a set of remote files. So the problem of aggregating data across file boundaries is handled on the client side, allowing simple web servers to be used. The das2 graphics library provides rich controls for exploring the data. Scripting is supported through Python, providing not just programmatic control, but for calculating new parameters in a language that will look familiar to IDL and Matlab users.
Autoplot is Java-based software, and will run on most computers without a burdensome installation process. It can also used as an applet or as a servlet that serves static images. It is expected that this flexible, general-purpose plotting tool will be useful for allowing a data provider to add instant visualization capabilities to a directory of files or for general use in the Virtual Observatory environment. Determining the most appropriate level of care for patients in the prehospital setting during medical emergencies is essential.
The purpose of this special report is to synthesize the literature to identify common study design and analytic challenges in research studies that examine the effect of ALS, compared to BLS, on patient outcomes. The challenges discussed in this report include: 1 choice of outcome measure; 2 logistic regression modeling of common outcomes; 3 baseline differences between study groups confounding ; 4 inappropriate statistical adjustment; and 5 inclusion of patients who are no longer at risk for the outcome.
These challenges may affect the results of studies, and thus, conclusions of studies regarding the effect of level of prehospital care on patient outcomes should require cautious interpretation. Specific alternatives for avoiding these challenges are presented. Prehosp Disaster Med. The user does not have to download the applications to a…. This metric browser website describes and displays wall-to-wall landscape metrics that have been calculated for the entire conterminous U. The intent is to provide the user with an overview of the nature and utility of this landscape metric data set.
The land cover and pattern Federal Register , , , , Herbivory is a fundamental process determining reef resilience, and while algal farming damselfishes can help shape benthic assemblages, an understanding of their contribution to areas outside of defended territories is relatively unexplored. Here, we demonstrate how the farming damselfish Stegastes marginatus plays a dual role in benthic structuring by 1 contributing to persistence of the invasive macroalga Acanthophora spicifera within a Hawaiian marine protected area, where the macroalga occurred exclusively inside Stegastes territories, and 2 behaving as an opportunistic browser of the exotic alga outside their territorial borders.
Consequently, S. These results provide a rare example of interspecific facilitation of an exotic alga by an indigenous marine fish. Accounting for fish behaviors more broadly is important to further our understanding. Existing implementations of collaborative image interpretation have many limitations for very large satellite imageries, such as inefficient browsing, slow transmission, etc.
This article presents a KML-based approach to support distributed, real-time, synchronous collaborative interpretation for remote sensing images in the geo- browser. Existing KML elements can be used to describe simple interpretation results indicated by vector symbols. To enlarge its application, this article expands KML elements to describe some complex image processing operations, including band combination, grey transformation, geometric correction, etc. Improved KML is employed to describe and share interpretation operations and results among interpreters.
Further, this article develops some collaboration related services that are collaboration launch service, perceiving service and communication service. The launch service creates a collaborative interpretation task and provides a unified interface for all participants.
The perceiving service supports interpreters to share collaboration awareness. Communication service provides interpreters with written words communication. The geo- browser , which manage and visualize massive geospatial information, can provide distributed users with quick browsing and transmission. Results show that the proposed method is available to support distributed collaborative interpretation of remote sensing image. Comparative genomic hybridisation as a supportive tool in diagnostic pathology.
Aims: Patients with multiple tumour localisations pose a particular problem to the pathologist when the traditional combination of clinical data, morphology, and immunohistochemistry does not provide conclusive evidence to differentiate between metastasis or second primary, or does not identify the primary location in cases of metastases and two primary tumours.
Because this is crucial to decide on further treatment, molecular techniques are increasingly being used as ancillary tools. Methods: The value of comparative genomic hybridisation CGH to differentiate between metastasis and second primary, or to identify the primary location in cases of metastases and two primary tumours was studied in seven patients. CGH is a cytogenetic technique that allows the analysis of genome wide amplifications, gains, and losses deletions in a tumour within a single experiment.
The patterns of these chromosomal aberrations at the different tumour localisations were compared. Results: In all seven cases, CGH patterns of gains and losses supported the differentiation between metastasis and second primary, or the identification of the primary location in cases of metastases and two primary tumours. Conclusion: The results illustrate the diagnostic value of CGH in patients with multiple tumours.
Functional response of ungulate browsers in disturbed eastern hemlock forests. Ungulate browsing in predator depleted North American landscapes is believed to be causing widespread tree recruitment failures. However, canopy disturbances and variations in ungulate densities are sources of heterogeneity that can buffer ecosystems against herbivory. We predicted that browsing impacts would be linear or accelerating Type I or Type III response in year 3 when regenerating stem densities were relatively low and decelerating Type II response in year 7 when stem densities increased.
We sampled and compared woody regeneration and browsing among logged and simulated insect attack treatments and two intact controls hemlock and hardwood forest in and again in We also examined relative use of the different stand types by comparing pellet group density and remote camera images.
The limited accuracy with which such structures could previously be predicted provided the motivation for a more indepth study of the contingency table itself. The Contingency Table Browser is a tool which can visualize, search and analyze the table. Our work presents possible applications of Contingency Table Browser , among them - analysis of specific protein sequences from the point of view of their structural ambiguity. This paper describes LightWAVE, recently-developed open-source software for viewing ECGs and other physiologic waveforms and associated annotations event markers.
It supports efficient interactive creation and modification of annotations, capabilities that are essential for building new collections of physiologic signals and time series for research. LightWAVE is constructed of components that interact in simple ways, making it straightforward to enhance or replace any of them.
It runs within any modern web browser and does not require installation on the user's computer, tablet, or phone. LightWAVE's data repository, back end, and front end can be located on the same computer or on separate computers. The data repository may be split across multiple computers. For compatibility with the standard browser security model, the front end and the scribe must be loaded from the same domain. Concertina browsers : a formative evaluation of user preference.
Evidence suggests that concertina browsers - browsers with the facility to expand and contract sections of information - are important in providing the reader with an enhanced cognition of small to medium amounts of information. These systems have been shown to be useful for visually disabled users surfing the World Wide Web Web , and with the development of the Mobile Web, there has been renewed interest in their use.
This is due to the similarities of reduced or constrained vision found to exist between visually impaired users and the users of mobile devices. The cognition of information fragments is key to the user experience and the reduction of 'information overload'; as such we are concerned with assisting designers of concertina browsers in providing an enhanced user experience by ascertaining user preference through a formative evaluation of concertina summaries.
Here we investigate a number of these concertina summarization techniques against each other. We describe a formative evaluation which concludes that users prefer concertina summarization of Web documents starting from 6. These preferences were found to be representative of documents of less than words of content, and included the preference to not fragment an individual sentence even if that meant slightly increasing the target: Starting, maximum, and step percentage slices.
Previous research suggests that in contrast to invisible social support , visible social support produces exaggerated negative emotional responses. Drawing on work by Bolger and colleagues, this study disentangled social support visibility from negative social evaluation in an examination of the effects of social support on negative emotions and cardiovascular responses.
As part of an anticipatory speech task, 73 female participants were randomly assigned to receive no social support , invisible social support , non-confounded visible social support or visible social support as delivered in a study by Bolger and Amarel. Twelve readings, each for systolic blood pressure, diastolic blood pressure and heart rate were taken at 5-min intervals throughout the periods of baseline, reactivity and recovery.
Cardiovascular outcomes were tested by incorporating a series of theoretically driven planned contrasts into tests of stress reactivity conducted through piecewise growth curve modelling. Linear and quadratic trends established cardiovascular reactivity to the task. Further, in comparison to the control and replication conditions, the non-confounded visible and invisible social support conditions attenuated cardiovascular reactivity over time.
Pre- and post-speech negative emotional responses were not affected by the social support manipulations. These results suggest that appropriately delivered visible social support may be as beneficial as invisible social support.
Clarissa, an experimental voice enabled procedure browser that has recently been deployed on the International Space Station ISS , is to the best of our knowledge the first spoken dialog system in space. This paper gives background on the system and the ISS procedures, then discusses the research developed to address three key problems: grammar-based speech recognition using the Regulus toolkit; SVM based methods for open microphone speech recognition; and robust side-effect free dialogue management for handling undos, corrections and confirmations.
Diagnostic Experience Browser DEB : a fusion of knowledge base and data base that allows users to examine only the data which is most useful to them is described. The system combines a data base of historical cases of diagnostic trouble-shooting experience with similarity networks. A menu-driven natural language interface receives input about the user's current problem. Similarity networks provide the user with references to past cases that are most similar or most related to those they now face.
The user can then choose the case that is most pertinent and browse its full textual description which, in turn, may include references to other related cases. Figure summarizer browser extensions for PubMed Central. Summary: Figures in biomedical articles present visual evidence for research facts and help readers understand the article better.
However, when figures are taken out of context, it is difficult to understand their content. Contact: agarwal uwm. This article advocates for the application of comparative international approaches to preparing pre-service and in-service teachers for meeting the needs of refugee students.
To start, the paper presents literature on refugees' varied educational experiences in their home countries and refugee camps as well as the processes through which they come…. Comparative judgment in assessment is a process whereby repeated comparison of two items e. In adaptive comparative judgment ACJ , technology is used to automate the process and present pairs of pieces of work over iterative cycles.
An online ACJ system was used to present students with work prepared by a previous cohort at the same stage of their studies. Each student was required to review and judge 20 answers provided by the previous cohort to a free-text short answer question. The time that students spent on the judgment tasks was recorded, and students were asked to reflect on their experiences after engaging with the task. There was a strong positive correlation between student ranking and faculty marking.
A weak positive correlation was found between the time students spent on the judgments and their performance on the part of their own examination that contained questions in the same format. Qualitative data highlighted different levels of benefit from the simplest aspect of learning more about the topic to an appreciation of the more generic lessons to be learned. GBshape: a genome browser database for DNA shape annotations.
Many regulatory mechanisms require a high degree of specificity in protein-DNA binding. Nucleotide sequence does not provide an answer to the question of why a protein binds only to a small subset of the many putative binding sites in the genome that share the same core motif. Whereas higher-order effects, such as chromatin accessibility, cooperativity and cofactors, have been described, DNA shape recently gained attention as another feature that fine-tunes the DNA binding specificities of some transcription factor families.
Additional genomes can easily be added using the GBshape framework. GBshape can be used to visualize DNA shape annotations qualitatively in a genome browser track format, and to download quantitative values of DNA shape features as a function of genomic position at nucleotide resolution. As biological applications, we illustrate the periodicity of DNA shape features that are present in nucleosome-occupied sequences from human, fly and worm, and we demonstrate structural similarities between transcription start sites in the genomes of four Drosophila species.
Introduction to the fathead minnow genome browser and Ab initio gene prediction and evidence alignment were used to produce the first annotations for the fathead minnow SOAPdenovo genome assembly. Additionally, a genome browser hosted at genome. This work is meant to extend the utility of fathead minnow genome as a resource and enable the continued development of this species as a model organism.
The fathead minnow Pimephales promelas is a laboratory model organism widely used in regulatory toxicity testing and ecotoxicology research. Despite, the wealth of toxicological data for this organism, until recently genome scale information was lacking for the species, which limited the utility of the species for pathway-based toxicity testing and research.
As part of a EPA Pathfinder Innovation Project, next generation sequencing was applied to generate a draft genome assembly, which was published in However, application of those genome-scale sequencing resources was still limited by the lack of available gene annotations for fathead minnow.
Here we report on development of a first generation genome annotation for fathead minnow and the dissemination of that information through a web-based browser that makes it easy to search for genes of interest, extract the corresponding sequence, identify intron and exon boundaries and regulatory regions, and align the computationally predicted genes with other supporti.
Electronic data resources can enable molecular biologists to quickly get information from around the world that a decade ago would have been buried in papers scattered throughout the library. The ability to access, query, and display these data make benchwork much more efficient and drive new discoveries.
Increasingly, mastery of software resources and corresponding data repositories is required to fully explore the volume of data generated in biomedical and agricultural research, because only small amounts of data are actually found in traditional publications. The UCSC Genome Browser provides a wealth of data and tools that advance understanding of genomic context for many species, enable detailed analysis of data, and provide the ability to interrogate regions of interest across disparate data sets from a wide variety of sources.
Researchers can also supplement the standard display with their own data to query and share this with others. The ability to access, query, and display these data makes benchwork much more efficient and drives new discoveries. Orphan Crops Browser : a bridge between model and orphan crops. Many important crops have received little attention by the scientific community, either because they are not considered economically important or due to their large and complex genomes.
De novo transcriptome assembly, using next-generation sequencing data, is an attractive option for the study of these orphan crops. In spite of the large amount of sequencing data that can be generated, there is currently a lack of tools which can effectively help molecular breeders and biologists to mine this type of information. The Orphan Crops Browser has been designed to facilitate the following tasks 1 search and identification of candidate transcripts based on phylogenetic relationships between orthologous sequence data from a set of related species and 2 design specific and degenerate primers for expression studies in the orphan crop of interest.
To demonstrate the usability and reliability of the browser , it was used to identify the putative orthologues of 17 known lignin biosynthetic genes from maize and sugarcane in the orphan crop Miscanthus sinensis.
Expression studies in miscanthus stem internode tissue differing in maturation were subsequently carried out, to follow the expression of these genes during lignification. Our results showed a negative correlation between lignin content and gene expression. The present data are in agreement with recent findings in maize and other crops, and it is further discussed in this paper.
Chem Browser : a flexible framework for mining chemical documents. The ability to extract chemical and biological entities and relations from text documents automatically has great value to biochemical research and development activities. The growing maturity of text mining and artificial intelligence technologies shows promise in enabling such automatic chemical entity extraction capabilities called "Chemical Annotation" in this paper.
Many techniques have been reported in the literature, ranging from dictionary and rule-based techniques to machine learning approaches. In practice, we found that no single technique works well in all cases. A combinatorial approach that allows one to quickly compose different annotation techniques together for a given situation is most effective.
In this paper, we describe the key challenges we face in real-world chemical annotation scenarios. We then present a solution called Chem Browser which has a flexible framework for chemical annotation. Chem Browser includes a suite of customizable processing units that might be utilized in a chemical annotator, a high-level language that describes the composition of various processing units that would form a chemical annotator, and an execution engine that translates the composition language to an actual annotator that can generate annotation results for a given set of documents.
We demonstrate the impact of this approach by tailoring an annotator for extracting chemical names from patent documents and show how this annotator can be easily modified with simple configuration alone. Modern web browsers are powerful and sophisticated applications that support an ever-wider range of uses. Applications delivered via the browser have several distinct benefits for the developer and user.
For example, they can be implemented using well-known and well-developed technologies, while distribution and use via a browser allows for rapid prototyping and deployment and ease of installation. In addition, delivery of applications via the browser allows for easy use on mobile, touch-enabled devices such as phones and tablets. We describe here its design, development, and usage as well as future plans.
It is specifically designed to support behavioral research along three dimensions: i larger group sizes, ii real-time but also discrete time experiments, and iii batches of simultaneous experiments. With zero-install, nodeGame can run on a great variety of devices, from desktop computers to laptops, smartphones, and tablets. The current version of the software is 3. Rice-Map: a new-generation rice genome browser. The concurrent release of rice genome sequences for two subspecies Oryza sativa L.
Since the advent of high-throughput analysis, huge amounts of functional genomics data have been delivered rapidly, making an integrated online genome browser indispensable for scientists to visualize and analyze these data.
Based on next-generation web technologies and high-throughput experimental data, we have developed Rice-Map, a novel genome browser for researchers to navigate, analyze and annotate rice genome interactively. More than one hundred annotation tracks 81 for japonica and 82 for indica have been compiled and loaded into Rice-Map.
These pre-computed annotations cover gene models, transcript evidences, expression profiling, epigenetic modifications, inter-species and intra-species homologies, genetic markers and other genomic features. In addition to these pre-computed tracks, registered users can interactively add comments and research notes to Rice-Map as User-Defined Annotation entries.
By smoothly scrolling, dragging and zooming, users can browse various genomic features simultaneously at multiple scales. On-the-fly analysis for selected entries could be performed through dedicated bioinformatic analysis platforms such as WebLab and Galaxy. Furthermore, a BioMart-powered data warehouse "Rice Mart" is offered for advanced users to fetch bulk datasets based on complex criteria.
Rice-Map delivers abundant up-to-date japonica and indica annotations, providing a valuable resource for both computational and bench biologists. The Small Bodies Imager Browser finding asteroid and comet images without pain. The volume of data returned by spacecraft missions has grown substantially over the last decade. While this wealth of data provides scientists with ample support for research, it has greatly increased the difficulty of managing, accessing and processing these data.
Further, the complexity necessary for a long-term archive results in an architecture that is efficient for computers, but not user friendly. Currently, the tool contains the entire repository of the Dawn mission's encounter with Vesta , and we will be adding other datasets in the future. A key strength of the tool is providing quick and easy access of these data.
The tool allows for searches based on clicking on a map or typing in coordinates. The SBIB can show an entire mission phase such as cycle 7 of the Low Altitude Mapping Orbit and the associated footprints, as well as search by image name. It can focus the search by mission phase, resolution or instrument. Imagery archived in the PDS are generally provided by missions in a single or narrow range of formats. If on or after October 8, a This paper presents an ongoing study of the development of a customizable web browser information organization and management system, which the author has named Lexicon Sextant LS.
LS is a user friendly, graphical web based add-on to the latest generation of web browsers , such as Google Chrome, making it easier and more intuitive to store and…. HotJava, an interactive, animated Web browser , based on the object-oriented Java programming language, is different from HTML-based browsers such as Netscape. GSuite Hyper Browser : integrative analysis of dataset collections across the genome and epigenome.
Recent large-scale undertakings such as ENCODE and Roadmap Epigenomics have generated experimental data mapped to the human reference genome as genomic tracks representing a variety of functional elements across a large number of cell types. Despite the high potential value of these publicly available data for a broad variety of investigations, little attention has been given to the analytical methodology necessary for their widespread utilisation.
We here present a first principled treatment of the analysis of collections of genomic tracks. We have developed novel computational and statistical methodology to permit comparative and confirmatory analyses across multiple and disparate data sources.
We delineate a set of generic questions that are useful across a broad range of investigations and discuss the implications of choosing different statistical measures and null models. Examples include contrasting analyses across different tissues or diseases. The methodology has been implemented in a comprehensive open-source software system, the GSuite Hyper Browser.
To make the functionality accessible to biologists, and to facilitate reproducible analysis, we have also developed a web-based interface providing an expertly guided and customizable way of utilizing the methodology. With this system, many novel biological questions can flexibly be posed and rapidly answered. Through a combination of streamlined data acquisition, interoperable representation of dataset collections, and customizable statistical analysis with guided setup and interpretation, the GSuite Hyper Browser represents a first comprehensive solution for integrative analysis of track collections across the genome and epigenome.
Web- browser encryption of personal health information. Background Electronic health records provide access to an unprecedented amount of clinical data for research that can accelerate the development of effective medical practices. Results We describe a system for remote data entry that allows the data that would identify the patient to be encrypted in the web browser of the person entering the data. These data cannot be decrypted on the server by the staff at the data center but can be decrypted by the person entering the data or their delegate.
We developed this system to solve a problem that arose in the context of clinical research, but it is applicable in a range of situations where sensitive information is stored and updated in a database and it is necessary to ensure that it cannot be viewed by any except those intentionally given access. Conclusion By developing this system, we are able to centralize the collection of some patient data while minimizing the risk that protected health information be made available to study personnel who are not authorized to use it.
PopHuman: the human population genomics browser. The availability of this sequence data provides the human lineage with an invaluable resource for population genomics studies, allowing the testing of molecular population genetics hypotheses and eventually the understanding of the evolutionary dynamics of genetic variation in human populations.
Here we present PopHuman, a new population genomics-oriented genome browser based on JBrowse that allows the interactive visualization and retrieval of an extensive inventory of population genetics metrics. Efficient and reliable parameter estimates have been computed using a novel pipeline that faces the unique features and limitations of the GP data, and include a battery of nucleotide variation measures, divergence and linkage disequilibrium parameters, as well as different tests of neutrality, estimated in non-overlapping windows along the chromosomes and in annotated genes for all 26 populations of the GP.
Spiny plants, mammal browsers , and the origin of African savannas. Savannas first began to spread across Africa during the Miocene. A major hypothesis for explaining this vegetation change is the increase in C4 grasses, promoting fire. We investigated whether mammals could also have contributed to savanna expansion by using spinescence as a marker of mammal herbivory.
Looking at the present distribution of 1, tree species, we established that spinescence is mainly associated with two functional types of mammals: large browsers and medium-sized mixed feeders. Using a dated phylogeny for the same tree species, we found that spinescence evolved at least 55 times.
The diversification of spiny plants occurred long after the evolution of Afrotherian proboscideans and hyracoids. However, it is remarkably congruent with diversification of bovids, the lineage including the antelope that predominantly browse these plants today. Our findings suggest that herbivore-adapted savannas evolved several million years before fire-maintained savannas and probably, in different environmental conditions.
Spiny savannas with abundant mammal herbivores occur in drier climates and on nutrient-rich soils, whereas fire-maintained savannas occur in wetter climates on nutrient-poor soils. Charles-Dominique, Tristan; Davies, T. Jonathan; Hempson, Gareth P. Choosing a genome browser for a Model Organism Database: surveying the Maize community.
Sen, Taner Z. As the B73 maize genome sequencing project neared completion, MaizeGDB began to integrate a graphical genome browser with its existing web interface and database. Because the genome as represented within the MaizeGDB Genome Browser is tied to detailed phenotypic data, molecular marker information, available stocks, etc.
Multiple browsers structure tree recruitment in logged temperate forests. Historical extirpations have resulted in depauperate large herbivore assemblages in many northern forests. In eastern North America, most forests are inhabited by a single wild ungulate species, white-tailed deer Odocoileus virginianus , and relationships between deer densities and impacts on forest regeneration are correspondingly well documented.
Recent recolonizations by moose Alces americanus in northeastern regions complicate established deer density thresholds and predictions of browsing impacts on forest dynamics because size and foraging differences between the two animals suggest a lack of functional redundancy. In contrast, in the partial exclosures, deer had non-significant effects on stem density, basal area, and species composition, but significantly reduced species richness by 2.
Moose used the control plots at roughly the same frequency as deer as determined by remote camera traps , suggesting that the much larger moose was the dominant browser species in terms of animal biomass in these cuts. A lack of functional redundancy with respect to foraging behavior between sympatric large herbivores may explain combined browsing effects that were. Family genome browser : visualizing genomes with pedigree information.
Owing to the advances in high-throughput sequencing technologies, family genome sequencing becomes more and more prevalent. Visualizing family genomes can greatly facilitate human genetics studies and personalized medicine. However, due to the complex genetic relationships and high similarities among genomes of consanguineous family members, family genomes are difficult to be visualized in traditional genome visualization framework. How to visualize the family genome variants and their functions with integrated pedigree information remains a critical challenge.
The FGB can visualize family genomes in both individual level and variant level effectively, through integrating genome data with pedigree information. Family genome analysis, including determination of parental origin of the variants, detection of de novo mutations, identification of potential recombination events and identical-by-decent segments, etc.
Diverse annotations for the family genome variants, such as dbSNP memberships, linkage disequilibriums, genes, variant effects, potential phenotypes, etc. Moreover, the FGB can automatically search de novo mutations and compound heterozygous variants for a selected individual, and guide investigators to find high-risk genes with flexible navigation options.
These features enable users to investigate and understand family genomes intuitively and systematically. All rights reserved. For Permissions, please e-mail: journals. IcyTree: rapid browser -based visualization for phylogenetic trees and networks. Abstract Summary: IcyTree is an easy-to-use application which can be used to visualize a wide variety of phylogenetic trees and networks.
While numerous phylogenetic tree viewers exist already, IcyTree distinguishes itself by being a purely online tool, having a responsive user interface, supporting phylogenetic networks ancestral recombination graphs in particular , and efficiently drawing trees that include information such as ancestral locations or trait values.
Web browsers are becoming the universal interface to reach applications and services related with these systems. Different browsing contexts may be required in order to reach them, e. By browsing context we mean how the user browsers the Web, including mainly the concrete configuration of its browser. When the context of the browser changes, its security requirements also change. In this work, we present the use of authorisation policies to automatise the process of controlling the resources of a Web browser when its context changes.
The objective of our proposal is oriented towards easing the adaptation to the security requirements of the new context and enforce them in the browser without the need for user intervention. Although the tool is not comprehensive, it could be viewed as a test bed for integrating legacy codes into modern systems.
Seo, Hyojeong; Shogren, Karrie A. This study examined similarities and differences in measurement properties and score comparability of the " Supports Intensity Scale-Adult Version" years and the " Supports Intensity Scale-Children's Version" years. Data were collected from adolescents with intellectual disability with both versions of the…. This article sets out to explore how and whether the physical, social and conceived conditions in schools facilitate or disrupt support work aimed at improving student learning and preventing social exclusion.
This is accomplished by comparing student support practices in the common areas of two newly renovated secondary schools built in two…. The system uses the "odd-ball" row-col paradigm for generating the P evoked potentials on the scalp of the user, which are immediately processed and translated into web browser commands.
There were previous approaches for controlling a BCI web browser. However, to the best of our knowledge, none of them was focused on an assistive context, failing to test their applications with a suitable number of end users. In addition, all of them were synchronous applications, where it was necessary to introduce a "read-mode" command in order to avoid a continuous command selection.
Thus, the aim of this study is twofold: 1 to test our web browser with a population of multiple sclerosis MS patients in order to assess the usefulness of our proposal to meet their daily communication needs; and 2 to overcome the aforementioned limitation by adding a threshold that discerns between control and non-control states, allowing the user to calmly read the web page without undesirable selections.
The browser was tested with sixteen MS patients and five healthy volunteers. Both quantitative and qualitative metrics were obtained. MS participants reached an average accuracy of Results show that MS patients can successfully control the BCI web browser , improving their personal autonomy. Background New experimental methods must be developed to study interaction networks in systems biology.
To reduce biological noise, individual subjects, such as single cells, should be analyzed using high throughput approaches. The measurement of several correlative physical properties would further improve data consistency. Accordingly, a considerable quantity of data must be acquired, correlated, catalogued and stored in a database for subsequent analysis.
Results We have developed openBEB open Biological Experiment Browser , a software framework for data acquisition, coordination, annotation and synchronization with database solutions such as openBIS. OpenBEB consists of two main parts: A core program and a plug-in manager. Whereas the data-type independent core of openBEB maintains a local container of raw-data and metadata and provides annotation and data management tools, all data-specific tasks are performed by plug-ins.
The open architecture of openBEB enables the fast integration of plug-ins, e. A macro-interpreter allows the automation and coordination of the different modules. An update and deployment mechanism keeps the core program, the plug-ins and the metadata definition files in sync with a central repository. Conclusions The versatility, the simple deployment and update mechanism, and the scalability in terms of module integration offered by openBEB make this software interesting for a large scientific community.
OpenBEB targets three types of researcher, ideally working closely together: i Engineers and scientists developing new methods and instruments, e. Smartbomb Complicate It Yeah. Dolce; Oscar G. Reki D. Descendents Orgofart Enjoy! Bare Jr. Is just the beginning Vol. Butterfly Temple Iskorosten' instr. Tam Tam Go! The Notorious B. Danilo Perez Native Soul. Sophie B. A Static Lullaby Rattlesnake! Tabu feat.
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