scholarly journals A comprehensive analysis of code and data availability in biomedical research

2021 ◽  
Author(s):  
Dhrithi Deshpande ◽  
Aditya Sarkar ◽  
Ruiwei Guo ◽  
SERGHEI MANGUL
Keyword(s):  
Biomedical Research ◽  
Scientific Community ◽  
Design Methodology ◽  
Comprehensive Analysis ◽  
Data Availability ◽  
Data Driven ◽  
Scientific Disciplines ◽  
Research Organizations ◽  
Biomedical Journals ◽  
Current Scenario

Modern data-driven research increasingly depends on quantitative analysis, yet effectivemechanisms ensuring data and analysis transparency and reproducibility are yet to be developedand adopted widely. The importance and benefits of sharing research products has beenrecognized widely by the scientific community. In biomedical research, it is not only imperativeto publish a detailed description of the study design, methodology, results and interpretation, butthere is a pressing need to make all the research products publicly available, shareable, welldocumented to increase transparency and reproducibility. Current efforts in sharing researchproducts mostly rely on individual researchers and widely but variably enforced by theseindividuals and research organizations. However, an increasing body of evidence in recent yearsalso points to a growing problem of reproducibility across scientific disciplines, i.e. publishedresults often contain analyses that are non replicated due to lack of documentation, code anddata required to reproduce the analysis. Our results indicate that only 36% of the scientificmanuscripts published in prominent biomedical journals share raw data and 9% of the papersshare code. We hope that our analysis informs and exhorts the biomedical community to designeffective strategies to be widely adopted by the researchers to improve the current scenario oftransparency and reproducibility of data-driven biomedical research.

scholarly journals A comprehensive analysis of code and data availability in biomedical research

2021 ◽  
Author(s):  
Dhrithi Deshpande ◽  
Aditya Sarkar ◽  
Ruiwei Guo ◽  
Andrew Moore ◽  
Nicholas Darci-Maher ◽  
...  
Keyword(s):  
Biomedical Research ◽  
Scientific Community ◽  
Design Methodology ◽  
Comprehensive Analysis ◽  
Data Availability ◽  
Data Driven ◽  
Scientific Disciplines ◽  
Research Organizations ◽  
Biomedical Journals ◽  
Current Scenario

Modern data-driven research increasingly depends on quantitative analysis, yet effectivemechanisms ensuring data and analysis transparency and reproducibility are yet to be developedand adopted widely. The importance and benefits of sharing research products has beenrecognized widely by the scientific community. In biomedical research, it is not only imperativeto publish a detailed description of the study design, methodology, results and interpretation, butthere is a pressing need to make all the research products publicly available, shareable, welldocumented to increase transparency and reproducibility. Current efforts in sharing researchproducts mostly rely on individual researchers and widely but variably enforced by theseindividuals and research organizations. However, an increasing body of evidence in recent yearsalso points to a growing problem of reproducibility across scientific disciplines, i.e. publishedresults often contain analyses that are non replicated due to lack of documentation, code anddata required to reproduce the analysis. Our results indicate that only 36% of the scientificmanuscripts published in prominent biomedical journals share raw data and 9% of the papersshare code. We hope that our analysis informs and exhorts the biomedical community to designeffective strategies to be widely adopted by the researchers to improve the current scenario oftransparency and reproducibility of data-driven biomedical research.

scholarly journals The core academic and scientific disciplines underlying data-driven smart sustainable urbanism: an interdisciplinary and transdisciplinary framework

2021 ◽  
Vol 1 (1) ◽  
Author(s):  
Simon Elias Bibri
Keyword(s):  
The Body ◽  
Data Driven ◽  
New Era ◽  
The Core ◽  
Sustainable Urbanism ◽  
Scientific Disciplines ◽  
Specific Direction ◽  
Research Problems ◽  
Urban Planning And Development ◽  
Application Potential

AbstractA new era is presently unfolding wherein both smart urbanism and sustainable urbanism processes and practices are becoming highly responsive to a form of data-driven urbanism under what has to be identified as data-driven smart sustainable urbanism. This flourishing field of research is profoundly interdisciplinary and transdisciplinary in nature. It operates out of the understanding that advances in knowledge necessitate pursuing multifaceted questions that can only be resolved from the vantage point of interdisciplinarity and transdisciplinarity. This implies that the research problems within the field of data-driven smart sustainable urbanism are inherently too complex and dynamic to be addressed by single disciplines. As this field is not a specific direction of research, it does not have a unitary disciplinary framework in terms of a uniform set of the academic and scientific disciplines from which the underlying theories can be drawn. These theories constitute a unified foundation for the practice of data-driven smart sustainable urbanism. Therefore, it is of significant importance to develop an interdisciplinary and transdisciplinary framework. With that in regard, this paper identifies, describes, discusses, evaluates, and thematically organizes the core academic and scientific disciplines underlying the field of data-driven smart sustainable urbanism. This work provides an important lens through which to understand the set of established and emerging disciplines that have high integration, fusion, and application potential for informing the processes and practices of data-driven smart sustainable urbanism. As such, it provides fertile insights into the core foundational principles of data-driven smart sustainable urbanism as an applied domain in terms of its scientific, technological, and computational strands. The novelty of the proposed framework lies in its original contribution to the body of foundational knowledge of an emerging field of urban planning and development.

In quest of goldilocks ranges in searching for information on the web

2021 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
Anna Matysek ◽  
Jacek Tomaszczyk
Keyword(s):  
Information Search ◽  
Design Methodology ◽  
Search Task ◽  
Web Searching ◽  
Content Type ◽  
Scientific Disciplines ◽  
Preliminary Study ◽  
The Right ◽  
User Experiment ◽  
Practical Implications

PurposeThe quest to discover optimal conditions or amounts has been carried out in many scientific disciplines and practical fields. In astrophysics, biology, medicine, psychology and education, the quest has resulted in finding the right amount of something, a desirable middle between extremes, a balance between conditions or the optimal state of a system. The results are referred to as the Goldilocks principle, which is based on the idea of being “just right”. The aim of our study was to find out if there are any measures in information search that could be identified as Goldilocks ranges.Design/methodology/approachWe conducted a user experiment in which 68 participants carried out a time-unlimited, topical search task involving finding relevant websites on the basis of which the participants were supposed to prepare a presentation on a given topic. We examined aspects of their search behavior.FindingsWe found that information search Goldilocks ranges can be identified for a length of a search session, number of relevant results, number of queries submitted and number of search engine results pages (SERPs) visited. This preliminary study has resulted in indicating the following dominant ranges: Number of relevant documents found: 5–8; Time spent searching: 21–35 min; Number of queries submitted: 3–7; Number of SERPs viewed: 1–3.Originality/valueTill now, no one has studied Goldilocks ranges in information retrieval. The Goldilocks ranges have some practical implications for improving the effectiveness of web searching.

scholarly journals A Data-Driven Hybrid Urban Flood Modelling Approach

10.29007/fbh3 ◽  
2018 ◽  
Author(s):  
Xiaohan Li ◽  
Patrick Willems
Keyword(s):  
Data Availability ◽  
Data Driven ◽  
Property Management ◽  
Flood Modeling ◽  
Urban Flood ◽  
Flood Modelling ◽  
Data Sparseness ◽  
Input Quality ◽  
Fully Adaptive ◽  
Urban Flood Modelling

Urban flood pre-warning decisions made upon urban flood modeling is crucial for human and property management in urban area. However, urbanization, changing environmental conditions and climate change are challenging urban sewer models for their adaptability. While hydraulic models are capable of making accurate flood predictions, they are less flexible and more computationally expensive compared with conceptual models, which are simpler and more efficient. In the era of exploding data availability and computing techniques, data-driven models are gaining popularity in urban flood modelling, but meanwhile suffer from data sparseness. To overcome this issue, a hybrid urban flood modeling approach is proposed in this study. It incorporates a conceptual model to account for the dominant sewer hydrological processes and a logistic regression model able to predict the probabilities of flooding on a sub-urban scale. This approach is demonstrated for a highly urbanized area in Antwerp, Belgium. After comparison with a 1D/0D hydrodynamic model, its ability is shown with promising results to make probabilistic flood predictions, regardless of rainfall types or seasonal variation. In addition, the model has higher tolerance on data input quality and is fully adaptive for real time applications.

scholarly journals Report on the Meeting of the Political Science Members of the National Academy of Sciences

2013 ◽  
Vol 47 (01) ◽  
pp. 237-238
Author(s):  
David Laitin ◽  
Gary King
Keyword(s):  
Political Science ◽  
Scientific Community ◽  
Scientific Evidence ◽  
Natural Sciences ◽  
The Political ◽  
National Academy Of Sciences ◽  
Public Issues ◽  
Scientific Disciplines ◽  
The Many ◽  
Academy Of Sciences

With assistance of the APSA, the political science members of the National Academy of Sciences (NAS) held their standing meeting at the annual APSA convention in Chicago. The purposes of these meetings are two-fold: First, as required, to discuss ways that political science can fulfill the NAS mission in providing scientific evidence to address consequential public issues that come from queries posed by various agencies of government; and second, to increase the presence of political scientists in the Academy, where membership from our discipline is, in our view, much lower than political scientists' contributions to the scientific community, and does not adequately recognize the many political scientists who merit election. While we have made some progress toward this second goal, it is a complicated battle: 2,179 members and 437 foreign associates across scientific disciplines have been elected to and currently serve in the NAS, but only 21 are political scientists. Although the science-based mission of NAS does not seek to represent all of the highly pluralistic discipline of political science, far more research relying on methods that are recognized in the natural sciences is produced in our field than is presently represented in the NAS.

Principles of Protein Stability and Their Application in Computational Design

2018 ◽  
Vol 87 (1) ◽  
pp. 105-129 ◽  
Author(s):  
Adi Goldenzweig ◽  
Sarel J. Fleishman
Keyword(s):  
Thermal Stability ◽  
Phylogenetic Analysis ◽  
Protein Design ◽  
Biomedical Research ◽  
Design Methodology ◽  
Computational Design ◽  
Marginal Stability ◽  
Computational Stability ◽  
Rational Engineering ◽  
The Past

Proteins are increasingly used in basic and applied biomedical research. Many proteins, however, are only marginally stable and can be expressed in limited amounts, thus hampering research and applications. Research has revealed the thermodynamic, cellular, and evolutionary principles and mechanisms that underlie marginal stability. With this growing understanding, computational stability design methods have advanced over the past two decades starting from methods that selectively addressed only some aspects of marginal stability. Current methods are more general and, by combining phylogenetic analysis with atomistic design, have shown drastic improvements in solubility, thermal stability, and aggregation resistance while maintaining the protein's primary molecular activity. Stability design is opening the way to rational engineering of improved enzymes, therapeutics, and vaccines and to the application of protein design methodology to large proteins and molecular activities that have proven challenging in the past.

Criminal minds: profiling architects of financial crimes

2021 ◽  
Vol ahead-of-print (ahead-of-print) ◽  
Author(s):  
Shazeeda Ali
Keyword(s):  
Design Methodology ◽  
Comprehensive Analysis ◽  
Psychological Disorder ◽  
Financial Crime ◽  
Health Issues ◽  
Content Type ◽  
Psychological Attributes ◽  
Financial Crimes ◽  
Reduction Strategies ◽  
Risk Reduction Strategies

Purpose The purpose of this paper is to construct a profile of a financial criminal, with special emphasis on their psychological attributes. The objective is to determine if such a profile can provide a valuable tool for detecting perpetrators of financial crime and for implementing risk-reduction strategies. Design/methodology/approach The approach involved a review of various personality disorders and other mental health issues, as well as an analysis of a number of cases involving serious financial crime, to ascertain whether the behaviour of the perpetrators was consistent with certain psychological challenges. In addition, the study examined various motivators for the commission of the financial crime. Findings The research revealed some key commonalities among the perpetrators of financial crime and that their behaviour was often consistent with that of a person afflicted with a personality or other psychological disorder. Originality/value The study provides a comprehensive analysis of various personality and other psychological challenges afflicting a number of offenders involved in financial crime. It also provides some critical findings that could be valuable for those charged with establishing measures to prevent and detect financial crime.

Change is not just analogue but a data-driven vicious circle

2019 ◽  
Vol 18 (4) ◽  
pp. 150-154
Author(s):  
Charles Hipps
Keyword(s):  
Design Methodology ◽  
Vicious Circle ◽  
Data Driven ◽  
Vicious Cycle ◽  
Content Type ◽  
Talented People ◽  
Speed Up ◽  
Market Needs ◽  
Learning From Others

Purpose Change is no longer an event in HR. Competition is tougher than ever, and this battle for top talent is a vicious cycle that doesn't stop but reinvents itself all the time. The recruitment market needs to be more responsive to the continuous cycle of innovation and recognise the increasingly competitive marketplace that is rapidity getting tighter. Design/methodology/approach With more than 20 years as the founder of a leading recruitment technology vendor, the detail and content supplied in the feature are all of the author’s own thoughts and experiences, drawn from his own expertise and learning from others he has met en route. Findings More often than not, recruitment teams are doing what they have always done – seeing the same candidates and visiting the same events. Change, or more specifically in this case, technology, actually has the ability to speed up the process, enhance the candidate experience and give time back to recruiters to spend with the candidates. Originality/value It is widely known that talented people have higher expectations and opportunities than ever before. That makes it crucial for companies to reach them, deliver a highly engaging candidate experience and nurture a relationship well ahead of open opportunities.

Sign in / Sign up

Export Citation Format

Share Document