Finding useful data across multiple biomedical data repositories using DataMed

Nature Genetics

Volumn 49, Issue 6, 2017, Pages 816-819

  Ohno Machado, Lucila ^a,b   Sansone, Susanna Assunta ^c   Alter, George ^d   Fore, Ian ^e   Grethe, Jeffrey ^f   Xu, Hua ^g   Gonzalez Beltran, Alejandra ^c   Rocca Serra, Philippe ^c   Gururaj, Anupama E ^g   Bell, Elizabeth ^a   Soysal, Ergin ^g   Zong, Nansu ^a   Kim, Hyeon Eui ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b VA SAN DIEGO HEALTHCARE SYSTEM   (United States)

^c UNIVERSITY OF OXFORD   (United Kingdom)

^d UNIVERSITY OF MICHIGAN   (United States)

^e NATIONAL INSTITUTES OF HEALTH   (United States)

^f UNIVERSITY OF CALIFORNIA   (United States)

^g UNIVERSITY OF TEXAS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIBLIOGRAPHIC DATABASE; CLINICAL DATA REPOSITORY; DATAMED; HUMAN; INFORMATION PROCESSING; KNOWLEDGE DISCOVERY; MEDICAL LITERATURE; MEDICAL RESEARCH; MEDLINE; METADATA; NATIONAL HEALTH ORGANIZATION; PRIORITY JOURNAL; REVIEW; SEARCH ENGINE; STANDARD; BIOLOGICAL ONTOLOGY; BIOLOGY; FACTUAL DATABASE; PROCEDURES; SOFTWARE; SYSTEM ANALYSIS;

BIOLOGICAL ONTOLOGIES; BIOMEDICAL RESEARCH; COMPUTATIONAL BIOLOGY; DATABASES, FACTUAL; HUMANS; METADATA; SOFTWARE; SYSTEMS INTEGRATION;

EID: 85019721343     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng.3864     Document Type: Review

References (18)

1. Wilkinson, M.D. et al. The FAIR Guiding Principles for scientific data management and stewardship. Sci. Data 3, 160018 (2016).
2. Collins, F.S. & Tabak, L.A. Policy: NIH plans to enhance reproducibility. Nature 505, 612-613 (2014).
3. Bourne, P.E. et al. The NIH Big Data to Knowledge (BD2K) initiative. J. Am. Med. Inform. Assoc. 22, 1114 (2015).
4. Lu, Z. PubMed and beyond: a survey of web tools for searching biomedical literature. Database (Oxford) 2011, baq036 (2011).
5. Sansone, S.-A. et al. DATS: the data tag suite to enable discoverability of datasets. Sci. Data 4, 170059 (2017).
6. Noruzi, A. Google Scholar: the new generation of citation indexes. Libri 55, 170-180 (2005).
7. Hands, A. Microsoft Academic Search-http:// academic.research.microsoft.com. Tech. Serv. Q. 29, 251-252 (2012).
8. Kejariwal, D. & Mahawar, K.K. Is your journal indexed in PubMed? Relevance of PubMed in biomedical scientific literature today. WebmedCentral MISCELLANEOUS 3, WMC003159 (2012).
9. Huh, S. Journal Article Tag Suite 1.0: National Information Standards Organization standard of journal extensible markup language. Sci. Ed. 1, 99-104 (2014).
10. Perez-Riverol, Y. et al. Nat. Biotechnol. 35, 406-409 (2017)
11. Brase, J. in 2009 Fourth International Conference on Cooperation and Promotion of Information Resources in Science and Technology (COINFO 2009) 257-261 (IEEE, 2009).
12. Chodorow, K. MongoDB: The Definitive Guide (O'Reilly Media, 2013).
13. Kuc, R. & Rogozinski, M. ElasticSearch Server (Packt Publishing, 2016).
14. Coll, I.S. & Cruz, J.M.B. Open archives initiative. Protocol for metadata harvesting (OAI-PMH): descripcion, funciones y aplicaciones de un protocolo. Prof. Inf. 12, 99-106 (2003).
15. Richardson, L. & Ruby, S. RESTful Web Services (O'Reilly Media, 2008).
16. Westbrook, J., Ito, N., Nakamura, H., Henrick, K. & Berman, H.M. PDBML: the representation of archival macromolecular structure data in XML. Bioinformatics 21, 988-992 (2005).
17. Kiryakov, A., Popov, B., Terziev, I. Manov, D. & Ognyanoff, D. Semantic annotation, indexing, and retrieval. Web Semantics 2, 49-79 (2004).
18. Haustein, S., Peters, I., Sugimoto, C.R., Thelwall, M. & Lariviere, V. Tweeting biomedicine: an analysis of tweets and citations in the biomedical literature. J. Assoc. Inf. Sci. Technol. 65, 656-669 (2014).