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Preliminary Study on the Impact of Literature Curation in a Model Organism Database on Article Citation Rates

Tanya Berardini, Ron Daniel, Amanda Clare, Michael Lauruhn, Leonore Reiser
2016 D-Lib Magazine  
One potential measure of data reuse is the citation rate of the article used in curation.  ...  in a Model Organism Database on Article Citation Rates Tanya Berardini The Arabidopsis Information Resource, Redwood City, California tberardi@arabidopsis.org Ron Daniel Jr.  ... 
doi:10.1045/september2016-berardini fatcat:udzvw2d3pneoddv2vkhtveiv2q

Current Research

Trish Chatterley
2014 Journal of the Canadian Health Libraries Association  
Methods: We undertook a preliminary grounded theory study investigating factors that impact on information professionals' participation in interdisciplinary research.  ...  The association between the statistical significance of each study and the number of citations it received between 2008 and 2010 was assessed in mixed Poisson models.  ... 
doi:10.5596/c13-016 fatcat:yzqdpwidivg7tc664azgqtxiyy

Information Retrieval Using Machine Learning for Biomarker Curation in the Exposome-Explorer

Andre Lamurias, Sofia Jesus, Vanessa Neveu, Reza M. Salek, Francisco M. Couto
2021 Frontiers in Research Metrics and Analytics  
The database contents resulted from a manual literature search that yielded over 8,500 citations, but only a small fraction of these publications were used in the final database.  ...  Objective: In 2016, the International Agency for Research on Cancer, part of the World Health Organization, released the Exposome-Explorer, the first database dedicated to biomarkers of exposure for environmental  ...  The database contents resulted from a manual literature search that yielded over 8,500 citations, but only a small fraction of these publications were used in the final database.  ... 
doi:10.3389/frma.2021.689264 pmid:34490412 pmcid:PMC8417071 fatcat:n3rsabp5unhxpgtwjchw42l66i

REDASA: A Secure Continually Updating Web-Source Processing Pipeline supporting a REaltime DAta Synthesis and Analysis of Scientific Literature (Preprint)

Uddhav Vaghela, Simon Rabinowicz, Paris Bratsos, Guy Martin, Epameinondas Fritzilas, Sheraz Markar, Sanjay Purkayastha, Karl Stringer, Harshdeep Singh, Charlie Llewellyn, Debabrata Dutta, Jonathan M Clarke (+4 others)
2020 Journal of Medical Internet Research  
articles in the realm of pooled COVID-19 information, representing ∼10% of the papers written worldwide on COVID-19 in under two weeks.  ...  By capturing curators' critical appraisal methodology through the application of discrete labelling and rating of information, REDASA has rapidly developed a foundational data science dataset of over 1400  ...  We would also like to thank the PanSurg Collaborative for their support during the project. We thank David Hilman for his technical support with the final stages of this paper.  ... 
doi:10.2196/25714 pmid:33835932 fatcat:ohpqch3mxngbdjwzridhe5qwaa

A literature reivew of scholarly communications metadata

Will Gregg, Christopher Erdmann, Laura Paglione, Juliane Schneider, Clare Dean
2019 Research Ideas and Outcomes  
The purpose of this literature review is to identify the challenges, opportunities, and gaps in knowledge with regard to the use of metadata in scholarly communications.  ...  It then ends with a 'bird's eye view' of the metadata supply chain which presents the network of relationships and interdependencies between stakeholders.  ...  The review draws on resources created by the various project groups of Metadata 2020 and thus owes a debt to all of its participants.  ... 
doi:10.3897/rio.5.e38698 fatcat:yz2nhx6tqrc3hdif7thf3kfj7e

Mapping the Scholarly Literature Found in Scopus on "Research Data Management": A Bibliometric and Data Visualization Approach

Li Zhang, Nickoal Eichmann-Kalwara
2019 Journal of Librarianship and Scholarly Communication  
RESULTS Through CiteSpace's modeling and computing, the knowledge (or network) structures, significant studies, notable topics, and development trends in the literature of RDM were revealed.  ...  Exploration of relevant literature and keeping pace with the dynamic area of study will contribute to a better understanding of RDM. 3.  ...  Records from other databases need to undergo a conversion within the tool. While this study acquired a high conversion rate (91%), a small number of data (9%) was lost in the conversion.  ... 
doi:10.7710/2162-3309.2266 fatcat:o74tg36l2vhmpetyqoyfwgjt3i

An open repository for single-cell reconstructions of the brain forest

Masood A. Akram, Sumit Nanda, Patricia Maraver, Rubén Armañanzas, Giorgio A. Ascoli
2018 Scientific Data  
Today this database is the largest public inventory of cellular reconstructions in neuroscience with a content of over 80,000 neurons and glia from a representative diversity of animal species, anatomical  ...  Datasets continuously contributed by hundreds of laboratories worldwide are centrally curated, converted into a common non-proprietary format, morphometrically quantified, and annotated with comprehensive  ...  Publication of this article was funded in part by the George Mason University Libraries Open Access Publishing Fund. Author Contributions All authors are core members of the NeuroMorpho.Org team.  ... 
doi:10.1038/sdata.2018.6 pmid:29485626 pmcid:PMC5827689 fatcat:ltqcqzwbybfwtn5ox6fdxvcgnm

Micropublication: incentivizing community curation and placing unpublished data into the public domain

Daniela Raciti, Karen Yook, Todd W Harris, Tim Schedl, Paul W Sternberg
2018 Database: The Journal of Biological Databases and Curation  
Large volumes of data generated by research laboratories coupled with the required effort and cost of curation present a significant barrier to inclusion of these data in authoritative community databases  ...  Getting researchers to adopt a new system of data reporting and curation requires a fundamental change in behavior among all members of the research community.  ...  Acknowledgements The authors would like to thank members of the C. elegans research community and representatives from other model organisms databases such as TAIR (The Arabidopsis Information Resource  ... 
doi:10.1093/database/bay013 pmid:29688367 pmcid:PMC5836261 fatcat:dhf2ampq4jgjzkpwnb7g63xkh4

25 Years of Molecular Biology Databases: A Study of Proliferation, Impact, and Maintenance

Heidi J. Imker
2018 Frontiers in Research Metrics and Analytics  
The resulting work allows for an examination of the overall historical trends, such as the rate of database proliferation and attrition as well as an evaluation of citation metrics and on-going database  ...  To take advantage of this opportunity, the study presented here first identifies each unique database described in 3055 Nucleic Acids Research Database Issue articles published between 1991 and 2016 to  ...  FIGURE 4 | 4 In this study, URLs for each unique database were tested to determine the rate of database attrition.  ... 
doi:10.3389/frma.2018.00018 fatcat:5mt2226xxbepfnlib6pklzouvq

Information Retrieval using Machine Learning for Biomarker Curation in the Exposome-Explorer [article]

Andre Lamurias, Sofia Jesus, Vanessa Neveu, Reza M Salek, Francisco M Couto
2020 bioRxiv   pre-print
risk factors for diseases.The database contents resulted from a manual literature search that yielded over 8500 citations, but only a small fraction of these publications were used in the final database  ...  In 2016, the International Agency for Research on Cancer, part of the World Health Organization, released the Exposome-Explorer, the first database dedicated to biomarkers of exposure for environmental  ...  Where authors are identified as personnel of the International Agency for Research on Cancer / World Health Organization, the authors alone are responsible for the views expressed in this article and they  ... 
doi:10.1101/2020.12.20.423685 fatcat:t2bhlwuj3fcx3o3mo7pvf4g5di

Exploring researchers' participation in online research identity management systems

Shuheng Wu, Besiki Stvilia, Dong Joon Lee
2016 Proceedings of the Association for Information Science and Technology  
Most participants of this study fell into the category of Personal Record Managers, who may maintain their own profiles in a RIM system.  ...  Prior studies have identified a need for engaging researchers in providing and curating their identity data.  ...  ACKNOWLEDGMENTS The authors would like to express their appreciation to the researchers who participated in the study.  ... 
doi:10.1002/pra2.2016.14505301105 dblp:conf/asist/WuSL16 fatcat:fkf5rlvlkfhkxkiyew6htqsv5y

Semi-automated Curation of Metabolic Models via Flux Balance Analysis: A Case Study with Mycoplasma gallisepticum

Eddy J. Bautista, Joseph Zinski, Steven M. Szczepanek, Erik L. Johnson, Edan R. Tulman, Wei-Mei Ching, Steven J. Geary, Ranjan Srivastava, Costas D. Maranas
2013 PLoS Computational Biology  
Citation: Bautista EJ, Zinski J, Szczepanek SM, Johnson EL, Tulman ER, et al. (2013) Semi-automated Curation of Metabolic Models via Flux Balance Analysis: A Case Study with Mycoplasma gallisepticum.  ...  The model predicted an average growth rate of 0.35860.12h {1 , closely matching the experimentally determined growth rate of M. gallisepticum of 0.24460.03h {1 .  ...  Acknowledgments The authors would like to thank the anonymous reviewers for their valuable input and comments regarding the manuscript. Author Contributions  ... 
doi:10.1371/journal.pcbi.1003208 pmid:24039564 pmcid:PMC3764002 fatcat:modul2cykzairewffg4jeaw2xy

Mapping of Zebrafish Research: A Global Outlook

Priyamvadah Kinth, Gopalakrishnan Mahesh, Yatish Panwar
2013 Zebrafish  
On the basis of analysis of 17,151 records on zebrafish identified from Zebrafish Information Network: the zebrafish model organism database and Web of Science, the research performance on this model organism  ...  The earliest research work on zebrafish as reflected in the databases goes back to 1951. After a rather slow growth till the 1980s, research on zebrafish gained momentum in the 1990s.  ...  Acknowledgment The authors thank the anonymous reviewers whose insightful comments enabled us to improve several sections of the article. Disclosure Statement No competing financial interests exist.  ... 
doi:10.1089/zeb.2012.0854 pmid:24131434 pmcid:PMC3842892 fatcat:rzlfborklffxhnjdurtd7b2g5q

Mapping Open Access Societal Impact

ElHassan ElSabry
2017 Research Ideas and Outcomes  
Much research was done about things like the OA citation advantage and the impact of different publishing models on library budgets.  ...  This unintentionally results in presenting the problem of access to research as one existing only within the boundaries of the research community.  ...  Acknowledgements I would like to thank all particpants of OpenCon 2016 and more specifically those who took part in my session (co-organized with Juan Pablo-Alperin) on the "Impact of OA beyond Academia  ... 
doi:10.3897/rio.3.e11743 fatcat:7slyh7vxk5gsnddxsrvzkxvfcu

Mining the Gene Wiki for functional genomic knowledge

Benjamin M Good, Douglas G Howe, Simon M Lin, Warren A Kibbe, Andrew I Su
2011 BMC Genomics  
The goal of this study is to define and assess a computational strategy for translating the text of Gene Wiki articles into ontology-based gene annotations.  ...  The Gene Wiki is comprised of more than 10,000 review articles, each describing one human gene.  ...  Acknowledgements We would like to thank Paea LePendu for executing a preliminary DO enrichment analysis and for other helpful advice and feedback.  ... 
doi:10.1186/1471-2164-12-603 pmid:22165947 pmcid:PMC3271090 fatcat:2lvwyc4ctndbbisrnbh4zybbni
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