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An Empirical Meta-analysis of the Life Sciences (Linked?) Open Data on the Web [article]

Maulik R. Kamdar, Mark A. Musen
2020 arXiv   pre-print
To tackle these challenges, the community has experimented with Semantic Web and linked data technologies to create the Life Sciences Linked Open Data (LSLOD) cloud.  ...  In this paper, we extract schemas from more than 80 publicly available biomedical linked data graphs into an LSLOD schema graph and conduct an empirical meta-analysis to evaluate the extent of semantic  ...  Acknowledgements The authors would like to dedicate this paper to the memory of Dr. Amrapali Zaveri, a staunch advocate for data quality issues  ... 
arXiv:2006.04161v1 fatcat:e2b35ti4cbguhgj3rwf4wml7zq

An empirical meta-analysis of the life sciences linked open data on the web

Maulik R. Kamdar, Mark A. Musen
2021 Scientific Data  
To tackle these challenges, the community has experimented with Semantic Web and linked data technologies to create the Life Sciences Linked Open Data (LSLOD) cloud.  ...  In this paper, we extract schemas from more than 80 biomedical linked open data sources into an LSLOD schema graph and conduct an empirical meta-analysis to evaluate the extent of semantic heterogeneity  ...  For conducting our meta-analysis of the Life Sciences Linked Open Data (LSLOD) cloud, we have selected a set of LOD projects, SPARQL endpoints, and RDF graphs, by querying the metadata of the projects  ... 
doi:10.1038/s41597-021-00797-y pmid:33479214 fatcat:iealrgcwwbhjlicg7m43mj4mee

Monitoring health service use at the end of life in the Calgary Zone of Alberta: a Population-level analysis linking multiple administrative datasets

Pin Cai, Andrew Fong, Aynharan Sinnarajah
2018 International Journal of Population Data Science  
With early stakeholder engagement in dashboard design, analysis, interpretation, and dissemination, the dashboard was well received and will be updated as more recent data becomes available.  ...  In 2015/16, about half of all 10,848 hospital discharges in the last year of life were incurred in the last 60 days of life, and about 40 percent were incurred in the last 30 days.  ...  With early stakeholder engagement in dashboard design, analysis, interpretation, and dissemination, the dashboard was well received and will be updated as more recent data becomes available.  ... 
doi:10.23889/ijpds.v3i4.602 fatcat:fpwptmnojnflfdcvk4xipcm22e

Analysis of factors associated with changing general practice in the first 14 years of life in Wales using linked cohort and primary care records: implications for using primary care databanks for life course research

Ashley Akbari, Ronan Lyons, Lucy Griffiths, Bianca De Stavola, Amrita Bandyopadhyay
2018 International Journal of Population Data Science  
Similar analyses of databases based on geographically disparate volunteer GPs are needed to quality assure their suitability for life course epidemiology research.  ...  Objectives and ApproachWe analysed linked pcEHRs for 1834 (882 girls) Millennium Cohort Study (MCS) participants, resident in Wales and with parental consent to health record linkage at the age seven MCS  ...  Similar analyses of databases based on geographically disparate volunteer GPs are needed to quality assure their suitability for life course epidemiology research.  ... 
doi:10.23889/ijpds.v3i4.818 fatcat:iboetze62najllx44w76ji3tgu

Analysis of factors associated with changing general practice in the first 14 years of life in Wales using linked cohort and primary care records: implications for using primary care databanks for life-course research

Carol Dezateux, Lucy J Griffiths, Bianca L De Stavola, Ashley Akbari, Amrita Bandyopadhyay, Karen S Tingay, Mario Cortina-Borja, Helen Bedford, Ronan A Lyons
2018 International Journal of Population Data Science  
Continuity of participation in the Welsh SAIL databank over early life is high, reflecting the high proportion of practices contributing, and the high proportion of children registered with them.  ...  Databanks of primary care electronic health records (pcEHRs) are a valuable resource for life course research, however loss to follow up due to changing general practice has received little attention.  ...  Continuity of participation in the Welsh SAIL databank over early life is high, reflecting the high proportion of practices contributing, and the high proportion of children registered with them.  ... 
doi:10.23889/ijpds.v3i2.477 fatcat:buq72dnabrfjzflz2t76ymranq

Mapping a decade of linked data progress through co-word analysis

Massoomeh Niknia, Seyedeh Leili Mirtaheri
2015 Webology  
The scientometric study employs hierarchical cluster analysis, strategic diagrams and network analysis to map and visualize the linked data landscape of the "Scopus" publications through the use of co-word  ...  Regarding the importance of Linked data, the main aim of this article is visualizing scientific mapping of linked data to show its progress through one decade.  ...  Within the content analysis results, we found that linked data in "life science" resources, especially older resources which are about linked data indicated to this subject in the different meaning as  ... 
doaj:f8135c8d3c074e79ac38ef2d0c7da803 fatcat:hqfiz6ljdvguxoat6tj6unenuu

Semantic Web technologies for the big data in life sciences

Hongyan Wu, Atsuko Yamaguchi
2014 BioScience Trends  
To ensure that big data has a major influence in the life sciences, comprehensive data analysis across multiple data sources and even across disciplines is indispensable.  ...  The life sciences field is entering an era of big data with the breakthroughs of science and technology. More and more big data-related projects and activities are being performed in the world.  ...  Acknowledgements This work has been supported by the National Bioscience Database Center (NBDC) of the Japan Science and Technology Agency (JST).  ... 
doi:10.5582/bst.2014.01048 fatcat:x2rlpyjel5cybarma34ji6sq3y

APPLICATIONS OF LINKED DATA IN THE LIFE SCIENCES [article]

Jasper Koehorst
2019 Figshare  
Presentation which was held during the WDCC event Applications of Linked Data on the 26th of September 2019.  ...  Presentation is about the usage of linked data technologies, old and new which we use in our department for research on biological systems.  ...  GBOL ontology for Interoperable genome annotation FAIR Data Sharing -Linked Data Triple store can be queried with SPARQL Standard Gene Prediction Tool Assembly FAIR BY DESIGN SEMANTIC ANALYSIS  ... 
doi:10.6084/m9.figshare.10028333 fatcat:rcua354vubgk5ctzo7jpv66o5q

Linked Data for Life Sciences

Amrapali Zaveri, Gökhan Ertaylan
2017 Algorithms  
We identify three tiers of the research cycle in life sciences, namely (i) systematic review of the existing body of knowledge, (ii) meta-analysis of data, and (iii) knowledge discovery of novel links  ...  In this review, we propose avenues for the use of Linked Data in the Life Sciences by identifying three tiers of research practice that are data intensive, time consuming, and lack support from the data  ...  Acknowledgments: This project/research has been made possible with the support of the Dutch Province of Limburg. Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/a10040126 fatcat:iwdwnbepu5d7roamldjrhxqbfi

A Challenge to Integrate Bioinformatics and Biodiversity Informatics Data as Museomics

Takeru Nakazato
2018 Biodiversity Information Science and Standards  
The mission of DBCLS is to accelerate the accessibility of life science data.  ...  To overcome this difficulty, we recently integrated life science data with Semantic Web technology.  ...  The mission of DBCLS is to accelerate the accessibility of life science data.  ... 
doi:10.3897/biss.2.26102 fatcat:w5kc2grbjndk7jakvp6zokb3hm

Secondary school students' perceptions of working life skills in science-related careers

Anssi Salonen, Anu Hartikainen-Ahia, Jonathan Hense, Annette Scheersoi, Tuula Keinonen
2017 International Journal of Science Education  
Using a questionnaire and qualitative content analysis, we examined their perceptions of working life skills in 'careers in science' and 'careers with science'.  ...  School students demonstrate a lack of interest in choosing science studies and science-related careers.  ...  of the data that ensured the reliability of further analysis.  ... 
doi:10.1080/09500693.2017.1330575 fatcat:5zrwt6et4vhzlacv4xmpfq4shq

Variations in the use and availability of formal and informal care at the end of life over time and space

Anna Schneider, Iain Atherton
2019 International Journal of Population Data Science  
Data Analysis is based on population data from the Scottish Census 2001 and 2011 that was linked with NHS data and death records data for everyone who passed away within a year of census enumeration.  ...  Geographic data includes the Scottish urban-rural classification and healthboards. Methods Data was linked via probability linkage. Descriptive analysis and regression models will be presented.  ...  Data Analysis is based on population data from the Scottish Census 2001 and 2011 that was linked with NHS data and death records data for everyone who passed away within a year of census enumeration.  ... 
doi:10.23889/ijpds.v4i3.1197 fatcat:xgurtv5hwjcblpl6ibk7ox2uxi

NMD SERVER: NATURAL MEDICINES DATABASE FOR DRUG DISCOVERY

Aman Chandra Kaushik, Shakti Sahi
2017 LIFE International Journal of Health and Life-Sciences  
NMD Server: Natural Medicines Database for Drug Discovery is a unique and significant database of its kind, giving researchers, medical practitioners, pharmaceutical industries and students of Life Sciences  ...  Regression tool, Sequence Manipulation of target, Statistical Analysis.  ...  / LIFE: International Journal of Health and Life-Sciences ISSN 2454-5872  ... 
doi:10.20319/lijhls.2017.32.216224 fatcat:tvqns3gtrfdl5paghgapmxv244

Methods for enhancing the reproducibility of clinical epidemiology research in linked electronic health records: results and lessons learned from the CALIBER platform

Spiros Denaxas, Holger Kunz, Liam Smeeth, Arturo Gonzalez-Izquierdo, Harry Boutselakis, Maria Pikoula, Harry Hemingway
2017 International Journal of Population Data Science  
Secondly, we propose a set of recommendations for applying them within the context of research projects making use of linked routinely collected health data.  ...  protocol creation and raw data curation to data transformation and statistical analysis though to finding dissemination and impact.  ...  Secondly, we propose a set of recommendations for applying them within the context of research projects making use of linked routinely collected health data.  ... 
doi:10.23889/ijpds.v1i1.84 fatcat:2cbkj4giwngfpeypsblot3ckc4

The Digital Extended Specimen will Enable New Science and Applications

Michael Webster, Jutta Buschbom, Alex Hardisty, Andrew Bentley
2021 Biodiversity Information Science and Standards  
Second, linking specimens to closely associated specimens (potentially across multiple disparate collections) allows for the coordinated co-analysis of those specimens.  ...  or recordings of the organism in life, immediate surrounding ecological community), and the wide range of associated specimen-independent data sets and model-based contextualisations (e.g., taxonomic  ...  Second, linking specimens to closely associated specimens (potentially across multiple disparate collections) allows for the coordinated co-analysis of those specimens.  ... 
doi:10.3897/biss.5.75736 fatcat:uclpw67gbnhhtofdo4tlforqma
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