Biomedical Statistics and Informatics

Research Output 2007 2019

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Conference contribution
2017
2 Citations (Scopus)

Unraveling complex local genomic rearrangements from long-read data

Stephens, Z. D., Iyer, R. K., Wang, C. & Kocher, J-P., Dec 15 2017, Proceedings - 2017 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2017. Institute of Electrical and Electronics Engineers Inc., Vol. 2017-January. p. 181-187 7 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

DNA
Genomic Structural Variation
Sequence Inversion
DNA Replication
Datasets
2015

Bioinformatics strategies for identifying regions of epigenetic deregulation associated with aberrant transcript splicing and RNA-editing

Champion, M. D., Hlady, R. A., Yan, H. D., Evans, J., Nie, J., Lee, J. H., Bogenberger, J., Nandakumar, K., Davila, J., Moore, R., Nair, A., O'Brien, D., Zhu, Y. X., Kortum, K. M., Ordog, T., Zhang, Z., Joseph, R. W., Stewart, A. K., Kocher, J-P., Jonasch, E. & 3 others, Robertson, K. D., Tibes, R. & Ho, T. H., 2015, BIOINFORMATICS 2015 - 6th International Conference on Bioinformatics Models, Methods and Algorithms, Proceedings; Part of 8th International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC 2015. SciTePress, p. 163-170 8 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

RNA Editing
Deregulation
Bioinformatics
Computational Biology
RNA
2014

Building a semantic web-based metadata repository for facilitating detailed clinical modeling in cancer genome studies

Jiang, G. D., Sharma, D. K., Solbrig, H. R., Tao, C., Weng, C. & Chute, C. G., 2014, CEUR Workshop Proceedings. CEUR-WS, Vol. 1320.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Semantic Web
Metadata
Genes
Drug products
Computer systems

Using semantic web technologies for quality measure phenotyping algorithm representation and automatic execution on EHR data

Shen, F., Li, D., Liu, H. D., Lee, Y., Pathak, J., Chute, C. G. & Tao, C., 2014, 2014 IEEE-EMBS International Conference on Biomedical and Health Informatics, BHI 2014. IEEE Computer Society, p. 531-534 4 p. 6864419

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Electronic Health Records
Semantic Web
Semantics
Health
Technology
2013

Analysis of vaccine-related networks using semantic medline and the vaccine ontology

Zhang, Y., Tao, C., He, Y., Kanjamala, P. & Liu, H. D., 2013, CEUR Workshop Proceedings. CEUR-WS, Vol. 1061.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Vaccines
Ontology
Semantics
Genes
Public health
7 Citations (Scopus)

An integrative computational approach to identify disease-specific networks from PubMed literature information

Zhang, Y., Li, D., Tao, C., Shen, F. & Liu, H. D., 2013, Proceedings - 2013 IEEE International Conference on Bioinformatics and Biomedicine, IEEE BIBM 2013. p. 72-75 4 p. 6732738

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Processing
Genes
Information use
Complex networks
Bioinformatics
4 Citations (Scopus)

Isosemantic rendering of clinical information using formal ontologies and RDF

Martínez-Costa, C., Bosca, D., Legaz-García, M. C., Tao, C., Fernández Breis, J. T., Schulz, S. & Chute, C. G., 2013, Studies in Health Technology and Informatics. 1-2 ed. Vol. 192. p. 1085 1 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Semantics
Ontology
Terminology
Semantic Web
Datasets

Ontology-based temporal analysis for medical device adverse event- A use case study on Late Stent Thrombosis

Clark, K., Sharma, D., Qin, R., Jiang, G. D., Chute, C. G. & Tao, C., 2013, CEUR Workshop Proceedings. CEUR-WS, Vol. 1114.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Stents
Ontology
Computer systems
1 Citation (Scopus)

Phenotyping on EHR data using OWL and semantic web technologies

Tao, C., Li, D., Shen, F., Lian, Z., Pathak, J., Liu, H. D. & Chute, C. G., 2013, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 8040 LNCS. p. 31-32 2 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 8040 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Semantic Web
Health
Electronics
2012
4 Citations (Scopus)

An overview of electronic health information management systems quality assessment

Bouamrane, M. M., Mair, F. S. & Tao, C., 2012, International Conference on Information and Knowledge Management, Proceedings. p. 37-46 10 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Information management
System quality
Data quality
Quality assessment
Health information

A semantic-web oriented representation of clinical element model for secondary use of electronic healthcare data

Tao, C., Jiang, G. D., Oniki, T. A., Freimuth, R., Pathak, J., Zhu, Q., Sharma, D., Huff, S. M. & Chute, C. G., 2012, Proceedings - 2012 IEEE 2nd Conference on Healthcare Informatics, Imaging and Systems Biology, HISB 2012. p. 133 1 p. 6366225

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Semantic Web
Semantics
Delivery of Health Care
Terminology
Language
1 Citation (Scopus)

Managing interoperability and compleXity in health systems - MIXHS'12

Tao, C. & Bouamrane, M. M., 2012, ACM International Conference Proceeding Series. p. 2758-2759 2 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Interoperability
Health
Knowledge engineering
Decision support systems
Information management
2 Citations (Scopus)

Modeling UIMA type system using web ontology language - Towards interoperability among UIMA-based NLP tools

Liu, H. D., Wu, S., Tao, C. & Chute, C., 2012, International Conference on Information and Knowledge Management, Proceedings. p. 31-36 6 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Modeling
Language
Natural language processing
Information management
Ontology
1 Citation (Scopus)

Ontology-based temporal relation modeling with map-reduce latent dirichlet allocations for big EHR data

Li, D., Tao, C., Liu, H. D. & Chute, C., 2012, Proceedings - 2nd International Conference on Cloud and Green Computing and 2nd International Conference on Social Computing and Its Applications, CGC/SCA 2012. p. 708-715 8 p. 6382894

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Ontology
Health
Hidden Markov models
Parameter estimation
Big data
11 Citations (Scopus)

Optimizing semantic MEDLINE for translational science studies using semantic web technologies

Tao, C., Zhang, Y., Jiang, G. D., Bouamrane, M. M. & Chute, C. G., 2012, International Conference on Information and Knowledge Management, Proceedings. p. 53-57 5 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Science studies
Web technology
Semantic web
Resources
Data base
1 Citation (Scopus)

Proposed SKOS extensions for bioportal terminology services

Tao, C., Noy, N. F., Solbrig, H. R., Shah, N. H., Musen, M. A. & Chute, C. G., 2012, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 7185 LNCS. p. 342-349 8 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 7185 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Terminology
Ontology
Browsing
Semantic Web
World Wide Web
12 Citations (Scopus)

Towards event sequence representation, reasoning and visualization for EHR data

Tao, C., Wongsuphasawat, K., Clark, K., Plaisant, C., Shneiderman, B. & Chute, C. G., 2012, IHI'12 - Proceedings of the 2nd ACM SIGHIT International Health Informatics Symposium. p. 801-805 5 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Electronic Health Records
Causality
Sequence Analysis
Retrospective Studies
Research
2011
5 Citations (Scopus)

Managing complexity in pre-operative information management systems

Bouamrane, M. M., Mair, F. & Tao, C., 2011, International Conference on Information and Knowledge Management, Proceedings. p. 3-10 8 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Information management
Management system
Anesthesia
Precaution
Knowledge management
2 Citations (Scopus)

Managing interoperability and complexity inhealth systems: MIXHS'11 workshop summary

Bouamrane, M. M. & Tao, C., 2011, International Conference on Information and Knowledge Management, Proceedings. p. 2635-2636 2 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Interoperability
System complexity
Health information
Information systems
Domain knowledge

Toward answering time-related questions from adverse event reports using ontology-based approaches

Tao, C., Jiang, G. D., Clark, K., Sharma, D. & Chute, C. G., 2011, CEUR Workshop Proceedings. Vol. 833. p. 332-334 3 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Ontology
7 Citations (Scopus)

Toward semantic web based knowledge representation and extraction from electronic health records

Tao, C., Pathak, J., Welch, S. R., Bouamrane, M. M., Huff, S. M. & Chute, C. G., 2011, International Conference on Information and Knowledge Management, Proceedings. p. 75-78 4 p.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Knowledge representation
Knowledge extraction
Electronic health record
Semantic web
Web-based
2010
1 Citation (Scopus)

KBB: A knowledge-bundle builder for research studies

Embley, D. W., Liddle, S. W., Lonsdale, D. W., Stewart, A. & Tao, C., 2010, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 6413 LNCS. p. 148-157 10 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 6413 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Bundle
Conceptual Modeling
Conceptual Model
Research and Development
Repository
25 Citations (Scopus)

Time-oriented question answering from clinical narratives using semantic-web techniques

Tao, C., Solbrig, H. R., Sharma, D. K., Wei, W. Q., Savova, G. K. & Chute, C. G., 2010, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). PART 2 ed. Vol. 6497 LNCS. p. 241-256 16 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 6497 LNCS, no. PART 2).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Question Answering
Semantic Web
Ontology
Application programming interfaces (API)
Normalizer
2009

LexRDF model: An RDF-based unified model for heterogeneous biomedical ontologies

Tao, C., Pathak, J., Solbrig, H. R., Wei, W. Q. & Chute, C. G., 2009, CEUR Workshop Proceedings. Vol. 521.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Ontology
Specifications
Terminology
Semantic Web
Application programming interfaces (API)
2008
23 Citations (Scopus)

Learning on weighted hypergraphs to integrate protein interactions and gene expressions for cancer outcome prediction

Hwang, T., Tian, Z., Kuang, R. & Kocher, J-P., 2008, Proceedings - IEEE International Conference on Data Mining, ICDM. p. 293-302 10 p. 4781124

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Gene expression
Proteins
Genes
Oncology
Data integration