scholarly journals The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities

2019 ◽  
Author(s):  
James J Davis ◽  
Alice R Wattam ◽  
Ramy K Aziz ◽  
Thomas Brettin ◽  
Ralph Butler ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Cost Effective ◽  
Command Line ◽  
Web Based ◽  
The Public ◽  
Bioinformatic Tools ◽  
Resource Center ◽  
Bioinformatics Resource ◽  
Analysis Tools ◽  
Analysis Environment

Abstract The PathoSystems Resource Integration Center (PATRIC) is the bacterial Bioinformatics Resource Center funded by the National Institute of Allergy and Infectious Diseases (https://www.patricbrc.org). PATRIC supports bioinformatic analyses of all bacteria with a special emphasis on pathogens, offering a rich comparative analysis environment that provides users with access to over 250 000 uniformly annotated and publicly available genomes with curated metadata. PATRIC offers web-based visualization and comparative analysis tools, a private workspace in which users can analyze their own data in the context of the public collections, services that streamline complex bioinformatic workflows and command-line tools for bulk data analysis. Over the past several years, as genomic and other omics-related experiments have become more cost-effective and widespread, we have observed considerable growth in the usage of and demand for easy-to-use, publicly available bioinformatic tools and services. Here we report the recent updates to the PATRIC resource, including new web-based comparative analysis tools, eight new services and the release of a command-line interface to access, query and analyze data.

scholarly journals A prototype of web-based PPGIS for municipal planning using open source software

2021 ◽  
Author(s):  
Xiaohong (Serena) Ma
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Cost Effective ◽  
Web Based ◽  
Municipal Planning ◽  
The Public ◽  
Spatial Decision Making ◽  
The Cost ◽  
Gis Software ◽  
Common Barriers

Web-based Public Participation Geographic Information System (WebPPGIS) is inherently about empowering GIS and Web technology and enabling the public users to use the technology to capture their local knowledge and immerse them into the spatial decision making process. However, there have [sic] some common barriers to WebPPGIS implementation such as lack of communication mechanism for the public; lack of friendly use interface for the non-expert public users; and the cost of the GIS software packages etc. This thesis presents the results of a research project, aiming at overcoming the above barriers and implementing a practical WebPPGIS. General requirements of WebPPGIS are summarized based on the analysis of current researches and a prototype is implemented to demonstrate the feasibility of the approach. Also this thesis illustrates that Open Source Software (OSS) is a competetive solution for developing cost-effective WebPPGIS. Further, the evaluation of the prototype has been performed against the requirements

scholarly journals Bioinformatic Tools for Inferring Functional Information from Plant Microarray Data: Tools for the First Steps

2008 ◽  
Vol 2008 ◽  
pp. 1-9 ◽  
Author(s):  
Grier P. Page ◽  
Issa Coulibaly
Keyword(s):  
Microarray Data ◽  
Power Analysis ◽  
Functional Information ◽  
Web Based ◽  
Section 8 ◽  
Bioinformatic Tools ◽  
Microarray Study ◽  
Analysis Tools ◽  
A Genome ◽  
Mining Tools

Microarrays are a very powerful tool for quantifying the amount of RNA in samples; however, their ability to query essentially every gene in a genome, which can number in the tens of thousands, presents analytical and interpretative problems. As a result, a variety of software and web-based tools have been developed to help with these issues. This article highlights and reviews some of the tools for the first steps in the analysis of a microarray study. We have tried for a balance between free and commercial systems. We have organized the tools by topics including image processing tools (Section 2), power analysis tools (Section 3), image analysis tools (Section 4), database tools (Section 5), databases of functional information (Section 6), annotation tools (Section 7), statistical and data mining tools (Section 8), and dissemination tools (Section 9).

A prototype of web-based PPGIS for municipal planning using open source software

2021 ◽  
Author(s):  
Xiaohong (Serena) Ma
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Cost Effective ◽  
Web Based ◽  
Municipal Planning ◽  
The Public ◽  
Spatial Decision Making ◽  
The Cost ◽  
Gis Software ◽  
Common Barriers

Web-based Public Participation Geographic Information System (WebPPGIS) is inherently about empowering GIS and Web technology and enabling the public users to use the technology to capture their local knowledge and immerse them into the spatial decision making process. However, there have [sic] some common barriers to WebPPGIS implementation such as lack of communication mechanism for the public; lack of friendly use interface for the non-expert public users; and the cost of the GIS software packages etc. This thesis presents the results of a research project, aiming at overcoming the above barriers and implementing a practical WebPPGIS. General requirements of WebPPGIS are summarized based on the analysis of current researches and a prototype is implemented to demonstrate the feasibility of the approach. Also this thesis illustrates that Open Source Software (OSS) is a competetive solution for developing cost-effective WebPPGIS. Further, the evaluation of the prototype has been performed against the requirements

A prototype of web-based PPGIS for municipal planning using open source software

2021 ◽  
Author(s):  
Xiaohong (Serena) Ma
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Cost Effective ◽  
Web Based ◽  
Municipal Planning ◽  
The Public ◽  
Spatial Decision Making ◽  
The Cost ◽  
Gis Software ◽  
Common Barriers

Web-based Public Participation Geographic Information System (WebPPGIS) is inherently about empowering GIS and Web technology and enabling the public users to use the technology to capture their local knowledge and immerse them into the spatial decision making process. However, there have [sic] some common barriers to WebPPGIS implementation such as lack of communication mechanism for the public; lack of friendly use interface for the non-expert public users; and the cost of the GIS software packages etc. This thesis presents the results of a research project, aiming at overcoming the above barriers and implementing a practical WebPPGIS. General requirements of WebPPGIS are summarized based on the analysis of current researches and a prototype is implemented to demonstrate the feasibility of the approach. Also this thesis illustrates that Open Source Software (OSS) is a competetive solution for developing cost-effective WebPPGIS. Further, the evaluation of the prototype has been performed against the requirements

scholarly journals A prototype of web-based PPGIS for municipal planning using open source software

2021 ◽  
Author(s):  
Xiaohong (Serena) Ma
Keyword(s):  
Open Source ◽  
Open Source Software ◽  
Cost Effective ◽  
Web Based ◽  
Municipal Planning ◽  
The Public ◽  
Spatial Decision Making ◽  
The Cost ◽  
Gis Software ◽  
Common Barriers

Web-based Public Participation Geographic Information System (WebPPGIS) is inherently about empowering GIS and Web technology and enabling the public users to use the technology to capture their local knowledge and immerse them into the spatial decision making process. However, there have [sic] some common barriers to WebPPGIS implementation such as lack of communication mechanism for the public; lack of friendly use interface for the non-expert public users; and the cost of the GIS software packages etc. This thesis presents the results of a research project, aiming at overcoming the above barriers and implementing a practical WebPPGIS. General requirements of WebPPGIS are summarized based on the analysis of current researches and a prototype is implemented to demonstrate the feasibility of the approach. Also this thesis illustrates that Open Source Software (OSS) is a competetive solution for developing cost-effective WebPPGIS. Further, the evaluation of the prototype has been performed against the requirements

Bid rigging in public procurement market according to the decisions of the President of the Office of Competition and Consumer Protection

2018 ◽  
Vol 5 (2) ◽  
pp. 161
Author(s):  
Konrad RÓŻOWICZ
Keyword(s):  
Decision Making ◽  
Comparative Analysis ◽  
Consumer Protection ◽  
Design Research ◽  
Public Procurement ◽  
Appeal Chamber ◽  
Interesting Issue ◽  
Market Control ◽  
The Public ◽  
Bid Rigging

Aim: In the practice of awarding public contracts, sometimes the behavior of market actors, instead of competing with other entities, are aimed at illegal cooperation, including bid rigging. The above shows that healthy competition is not possible without efficient market control. In public procurement market this control is, primarily, carried out by public procurement entities: the President of the Public Procurement Office (Prezes UZP) and the National Appeal Chamber (KIO), and furthermore by President od the Office of Competition (Prezes UOKiK) and Consumer Protection and the Court od Competition and Consumer Protection. and Consumer Protection (SOKiK). The interesting issue is how the activities of the President of Office of Competition and Consumer Protection targeted  to contend with bid rigging affects on the activities of President of the Public Procurement Office (Prezes UZP) or the National Appeal Chamber (KIO). Design / Research methods: analysis and comparison decisions/ judgment issued by the President of the Public Procurement Office, National Appeal Chamber, the President of  the Office of Competition and Consumer Protection and the Court of Competition and Consumer Protection. Conclusions: The analysis has shown that the existence of specificities in the activities of the decision-making bodies and the judgments examined. However, in keeping with the specificity of the forms and objectives of control, these entities should cooperate, to a greater extent than before. Expanding the scope of cooperation would make it possible to better contend with bid rigging without changing the competition protection model. The introduction of institutionalized instruments for cooperation between the authorities seems to be valuable in terms of system solutions. Value of the article: The main value of the article is the comparison of selectively selected decisions and judgments representative of the problem under consideration and their comparative analysis in order to achieve the research objectives. The article deals with issues relevant to both public procurement practitioners and the state bodies dealing with procurement matters.

DESIGN AND DEVELOPMENT OF POPULATION SERVICE ADMINISTRATION SYSTEM WITH PIECES METHOD IN KEMIRI VILLAGE HEAD OFFICE BANTEN

2019 ◽  
Vol 1 (1) ◽  
pp. 33-45
Author(s):  
Rosdiana Rosdiana ◽  
Padeli Padeli ◽  
Revi Sajidah Sri Handayani ◽  
Rifky Alfian
Keyword(s):  
Human Error ◽  
Unified Modeling Language ◽  
Integrated System ◽  
Web Based ◽  
Administration System ◽  
Unified Modeling ◽  
The Public ◽  
File Storage ◽  
The Government ◽  
The Village

The public service administration system at the government offices of the Kemiri village office in the Kemiri District currently does not have a computerized and integrated system. Because the system runs, residents who submit letters for administrative completeness, still use the Ms.Word / Ms.Excel application. of course has many weaknesses including human error, not neat in file storage, resulting in the lengthy process of searching and making a cover letter and required reports. The analytical method used in this study is to use PIECES (Performance, Informance, Economy, Control, Efficiency, Service) analysis, the design of the model uses UML (Unified Modeling Language). The results of this study are web-based letter information systems at the Office of the Village Chief of Kemiri that can accessed using a local computer browser. Thus the information letter needed by the Kemiri Village community and more effective and efficient in making the letter.

scholarly journals Assessing the Risk of Democratic Reversal in the United States: A Reply to Kurt Weyland

2021 ◽  
pp. 1-6
Author(s):  
Matias López ◽  
Juan Pablo Luna
Keyword(s):  
United States ◽  
Comparative Analysis ◽  
Boolean Algebra ◽  
Qualitative Comparative Analysis ◽  
The United States ◽  
American Democracy ◽  
Institutional Dynamics ◽  
The Public ◽  
Original Analysis ◽  
The Impact

ABSTRACT By replying to Kurt Weyland’s (2020) comparative study of populism, we revisit optimistic perspectives on the health of American democracy in light of existing evidence. Relying on a set-theoretical approach, Weyland concludes that populists succeed in subverting democracy only when institutional weakness and conjunctural misfortune are observed jointly in a polity, thereby conferring on the United States immunity to democratic reversal. We challenge this conclusion on two grounds. First, we argue that the focus on institutional dynamics neglects the impact of the structural conditions in which institutions are embedded, such as inequality, racial cleavages, and changing political attitudes among the public. Second, we claim that endogeneity, coding errors, and the (mis)use of Boolean algebra raise questions about the accuracy of the analysis and its conclusions. Although we are skeptical of crisp-set Qualitative Comparative Analysis as an adequate modeling choice, we replicate the original analysis and find that the paths toward democratic backsliding and continuity are both potentially compatible with the United States.

scholarly journals Quantifying Media Effects, Its Content, and Role in Promoting Community Awareness of Chikungunya Epidemic in Bangladesh

Epidemiologia ◽  
2021 ◽  
Vol 2 (1) ◽  
pp. 84-94
Author(s):  
Mst. Marium Begum ◽  
Osman Ulvi ◽  
Ajlina Karamehic-Muratovic ◽  
Mallory R. Walsh ◽  
Hasan Tarek ◽  
...  
Keyword(s):  
Social Media ◽  
Web Based ◽  
Study Objective ◽  
The Public ◽  
Mainstream Media ◽  
Related Information ◽  
Vector Borne ◽  
Media Outlet ◽  
And Control

Background: Chikungunya is a vector-borne disease, mostly present in tropical and subtropical regions. The virus is spread by Ae. aegypti and Ae. albopictus mosquitos and symptoms include high fever to severe joint pain. Dhaka, Bangladesh, suffered an outbreak of chikungunya in 2017 lasting from April to September. With the goal of reducing cases, social media was at the forefront during this outbreak and educated the public about symptoms, prevention, and control of the virus. Popular web-based sources such as the top dailies in Bangladesh, local news outlets, and Facebook spread awareness of the outbreak. Objective: This study sought to investigate the role of social and mainstream media during the chikungunya epidemic. The study objective was to determine if social media can improve awareness of and practice associated with reducing cases of chikungunya. Methods: We collected chikungunya-related information circulated from the top nine television channels in Dhaka, Bangladesh, airing from 1st April–20th August 2017. All the news published in the top six dailies in Bangladesh were also compiled. The 50 most viewed chikungunya-related Bengali videos were manually coded and analyzed. Other social media outlets, such as Facebook, were also analyzed to determine the number of chikungunya-related posts and responses to these posts. Results: Our study showed that media outlets were associated with reducing cases of chikungunya, indicating that media has the potential to impact future outbreaks of these alpha viruses. Each media outlet (e.g., web, television) had an impact on the human response to an individual’s healthcare during this outbreak. Conclusions: To prevent future outbreaks of chikungunya, media outlets and social media can be used to educate the public regarding prevention strategies such as encouraging safe travel, removing stagnant water sources, and assisting with tracking cases globally to determine where future outbreaks may occur.

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