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Sistemas de recuperación de información adaptados al dominio biomédico

Mónica Marrero, Sonia Sánchez-Cuadrado, Julián Urbano, Jorge Morato, José-Antonio Moreiro
2010 El Profesional de la Informacion  
Information retrieval systems in the biomedical domain use techniques oriented to the treatment of these lexical peculiarities.  ...  Finally, we present the evaluation methods adopted to assess the suitability of these techniques for retrieving biomedical resources.  ...  Information retrieval systems in the biomedical domain use techniques oriented to the treatment of these lexical peculiarities.  ... 
doi:10.3145/epi.2010.may.04 fatcat:gm2i3c3z2zghxowkgo4gqtgphy

Enabling Ontology Based Semantic Queries in Biomedical Database Systems

Shuai Zheng, Fusheng Wang, James Lu, Joel Saltz
2012 Proceedings of the ... ACM International Conference on Information & Knowledge Management. ACM International Conference on Information and Knowledge Management  
DBOntoLink is adaptable to different ontologies through customizations and supports major biomedical ontologies hosted at the NCBO BioPortal.  ...  The problem may be largely attributed to the mismatch between the models of the ontologies and the databases, and the mismatch between the query interfaces of the two systems.  ...  Acknowledgments This research is supported in part by PHS Grant UL1RR025008 from the CTSA program, R01LM009239 from the NLM, and NCI Contract No. HHSN261200800001E.  ... 
pmid:23404054 pmcid:PMC3567445 fatcat:3zkcvoz4cjcztjpam5pro4okp4

A Semantics- and Data-Driven SOA for Biomedical Multimedia Systems

Shih-Hsi Liu, Yu Cao, Ming Li, Pranay Kilaru, Thell Smith, Shaen Toner
2008 2008 Tenth IEEE International Symposium on Multimedia  
large-scale biomedical multimedia database systems is a challenging task.  ...  Additionally, six transmission services are introduced to support dynamic adaptation under specific requirements.  ...  Retrieval The objective of retrieval services is to efficiently assess large-scale biomedical multimedia databases using contentbased image/video retrieve algorithms [4] .  ... 
doi:10.1109/ism.2008.114 dblp:conf/ism/LiuCLKST08 fatcat:7viur2gzjzdirdlmmytosxnfji

A Semantics and Data-Driven Biomedical Multimedia Software System

Shih-Hsi Liu, Yu Cao, Ming Li, Pranay Kilaru, Thell Smith, Shaen Toner
2010 Journal of Multimedia  
Such a system takes the advantage of interoperability of SOA to solve the heterogeneity and correlation problems.  ...  Lastly, a biomedical education project that improves the performance of feature extraction and classification processed afterwards is introduced to illustrate the advantages of our software system developed  ...  The future plan is to introduce adapters to embrace existing work surveyed in [16] into our system.  ... 
doi:10.4304/jmm.5.4.352-360 fatcat:lsud2hwehrbhvp5r43tlcour6q

Enabling Ontology Based Semantic Queries in Biomedical Database Systems

Shuai Zheng, Fusheng Wang, James Lu
2014 International Journal of Semantic Computing (IJSC)  
The system is highly adaptable to support different ontologies through easy customizations.We have implemented the system DBOntoLink as an open source software, which supports major ontologies hosted at  ...  The system provides caching management to boosts query performance.  ...  Acknowledgement This research is supported in part by PHS Grant UL1RR025008 from the CTSA program, R01LM009239 from the NLM, and NCI Contract No. HHSN261200800001E.  ... 
doi:10.1142/s1793351x14500032 pmid:25541585 pmcid:PMC4275106 fatcat:x5zh22v3zffmphzh464zkmiaoe

Identifying Key Concepts from EHR Notes Using Domain Adaptation

Jiaping Zheng, Hong Yu
2015 Proceedings of the Sixth International Workshop on Health Text Mining and Information Analysis  
In this study, we explored domain adaptation approaches to improve key concept identification.  ...  It is shown that EHR query generation using key concept identification improves retrieval of education materials.  ...  The contents do not represent the views of the U.S. Department of Veterans Affairs or the United States Government.  ... 
doi:10.18653/v1/w15-2615 dblp:conf/acl-louhi/ZhengY15 fatcat:37zld7j6tfevjjcbqixngowfc4

Medical information retrieval: introduction to the special issue

Lorraine Goeuriot, Gareth J. F. Jones, Liadh Kelly, Henning Müller, Justin Zobel
2016 Information retrieval (Boston)  
We would also like to thank all the programme committee members: Sophia  ...  Acknowledgments We thank the co-editors of the journal Charles Clarke, Tetsuya Sakai and Arjen de Vries for their guidance during the editing of this special issue.  ...  The lively discussions at the workshop showed us how active and rich the domain was, and led us to set up this special issue of the Information Retrieval journal.  ... 
doi:10.1007/s10791-015-9277-8 fatcat:vup6o3ddcfhynap2wi7smikwfm

Measuring Domain Portability and ErrorPropagation in Biomedical QA [article]

Stefan Hosein, Daniel Andor, Ryan McDonald
2019 arXiv   pre-print
The second system takes this non-adapted model and fine-tunes it with the BioASQ training data. Next, we study the impact of error propagation in end-to-end retrieval and QA systems.  ...  Our main findings are that domain specific fine-tuning can benefit Biomedical QA.  ...  This allows us to analyze the effect of information retrieval on the QA system since the only difference between google-pred-input and google-gold-input is the context given to the QA system.  ... 
arXiv:1909.09704v2 fatcat:36n2tglfevevjhnbgwtvia2oli

Recent Advances in Automated Question Answering In Biomedical Domain [article]

Krishanu Das Baksi
2021 arXiv   pre-print
Therefore, it has become difficult to keep track of all the information in the domain, even for domain experts.  ...  In this paper, we introduce the basic methodologies used for developing general domain QA systems, followed by a thorough investigation of different aspects of biomedical QA systems, including benchmark  ...  adaptation [?]  ... 
arXiv:2111.05937v1 fatcat:5474jk6ozbalvmfjrgatu4tsna

Evaluation Infrastructures for Academic Shared Tasks

Johann Schaible, Timo Breuer, Narges Tavakolpoursaleh, Bernd Müller, Benjamin Wolff, Philipp Schaer
2020 Datenbank-Spektrum  
Academic search systems aid users in finding information covering specific topics of scientific interest and have evolved from early catalog-based library systems to modern web-scale systems.  ...  Due to these requirements, small to mid-size academic search systems cannot evaluate their retrieval system in-house. Evaluation infrastructures for shared tasks alleviate this situation.  ...  Acknowledgements The STELLA project is funded by the Deutsche Forschungsgemeinschaft (DFG) -Project number 407518790.  ... 
doi:10.1007/s13222-020-00335-x fatcat:f7lj6fr4n5hazoqtywrulw7b4u

BioinQA: metadata-based multi-document QA system for addressing the issues in biomedical domain

Sparsh Mittal, Saket Gupta, Ankush Mittal
2013 International Journal of Data Mining Modelling and Management  
Despite the availability of large amount of biomedical literature; extracting relevant information catering to the exact need of the user has been difficult in the absence of efficient domain specific  ...  This paper presents an intelligent QA system that answers natural language questions while adapting itself to the level of user.  ...  However, beginners prefer to use general information retrieval systems (such as Google), which suffer from the inherent drawbacks of open domain information retrieval systems.  ... 
doi:10.1504/ijdmmm.2013.051921 fatcat:sm4dotonqrghrieptmzjo3ysme

Boosting performance of bio-entity recognition by combining results from multiple systems

Luo Si, Tapas Kanungo, Xiangji Huang
2005 Proceedings of the 5th international workshop on Bioinformatics - BIOKDD '05  
The task of biomedical named-entity recognition is to identify technical terms in the domain of biology that are of special interest to domain experts.  ...  In order to take advantage of the rich feature representations and external domain knowledge used by different systems, we propose several Meta biomedical named-entity recognition algorithms that combine  ...  Furthermore, to perform higher level biomedical information extraction tasks such as event extraction, summarization and question answering, most systems first identify technical terms in the domain of  ... 
doi:10.1145/1134030.1134044 dblp:conf/kdd/SiKH05 fatcat:xs4xxzvkcbamtpzqg47hjc6qci

Biomedical question answering: A survey

Sofia J. Athenikos, Hyoil Han
2010 Computer Methods and Programs in Biomedicine  
Conclusion: Corresponding to the growth of biomedical information, there is a growing need for QA systems that can help users better utilize the ever-accumulating information.  ...  Based on the framework, we first conducted a survey of open-domain or non-biomedical-domain QA approaches that belong to each of the three subcategories.  ...  Acknowledgement We would like to thank the anonymous reviewers for their helpful feedback. r e f e r e n c e s  ... 
doi:10.1016/j.cmpb.2009.10.003 pmid:19913938 fatcat:tv4sel4llbcnjppnn7g2tygqze

A Reference Framework for Requirements and Architecture in Biomedical Grid Systems

Chris A. Mattmann, Vito Perrone, Sean Kelly, Daniel J. Crichton, Anthony Finkelstein, Nenad Medvidovic
2007 2007 IEEE International Conference on Information Reuse and Integration  
In this paper we introduce the work done to define a framework for requirements and architectural understanding in biomedical grid computing systems.  ...  A set of core requirements for biomedical grids have been identified on the basis of our experience in the analysis and development of several biomedical and other grid systems including the National Cancer  ...  in the biomedical domain.  ... 
doi:10.1109/iri.2007.4296656 dblp:conf/iri/MattmannPKCFM07 fatcat:rbqikyc3cjhq3g4qrqy45zgc4y

DiiS: A Biomedical Data Access Framework for Aiding Data Driven Research Supporting FAIR Principles

Priya Deshpande, Alexander Rasin, Jacob Furst, Daniela Raicu, Sameer Antani
2019 Data  
We attempt to address some of the key challenges through the proposed system.  ...  Our evaluation shows that the DiiS framework is a user friendly data integration system that would greatly contribute to biomedical research.  ...  Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/data4020054 fatcat:qnx7ahj2yvbc5ccuu66asiko54
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