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Journal of Biomedical Informatics, Volume 45
Volume 45, Number 1, February 2012
- Yue Wang, Michael Halper, Duo Helen Wei, Huanying Gu, Yehoshua Perl, Junchuan Xu, Gai Elhanan, Yan Chen, Kent A. Spackman, James T. Case, George Hripcsak:
Auditing complex concepts of SNOMED using a refined hierarchical abstraction network. 1-14 - Yue Wang, Michael Halper, Duo Helen Wei, Yehoshua Perl, James Geller:
Abstraction of complex concepts with a refined partial-area taxonomy of SNOMED. 15-29 - Zi-hui Li, Yu-feng Liu, Ke-ning Li, Hui-zi DuanMu, Zhi-qiang Chang, Zhen-qi Li, Shan-zhen Zhang, Yan Xu:
Analysis of functional and pathway association of differential co-expressed genes: A case study in drug addiction. 30-36 - Lilian Minne, Saeid Eslami, Nicolette de Keizer, Evert de Jonge
, Sophia E. de Rooij, Ameen Abu-Hanna
Statistical process control for validating a classification tree model for predicting mortality - A novel approach towards temporal validation. 37-44 - Elpiniki I. Papageorgiou
Formalization of treatment guidelines using Fuzzy Cognitive Maps and semantic web tools. 45-60 - Yan Chen, Huanying Gu, Yehoshua Perl, James Geller:
Overcoming an obstacle in expanding a UMLS semantic type extent. 61-70 - Danielle L. Mowery
Building an automated SOAP classifier for emergency department reports. 71-81 - Xia Jing
Incorporating personalized gene sequence variants, molecular genetics knowledge, and health knowledge into an EHR prototype based on the Continuity of Care Record standard. 82-92 - Tae Youn Kim, Amy Coenen, Nicholas R. Hardiker
Semantic mappings and locality of nursing diagnostic concepts in UMLS. 93-100 - Ketan K. Mane, Chris Bizon, Charles Schmitt
VisualDecisionLinc: A visual analytics approach for comparative effectiveness-based clinical decision support in psychiatry. 101-106 - Merlijn Sevenster, Rob C. van Ommering, Yuechen Qian:
Algorithmic and user study of an autocompletion algorithm on a large medical vocabulary. 107-119 - Tiffani J. Bright
Development and evaluation of an ontology for guiding appropriate antibiotic prescribing. 120-128 - Siddhartha Jonnalagadda, Trevor Cohen
Enhancing clinical concept extraction with distributional semantics. 129-140 - David Sánchez
Enabling semantic similarity estimation across multiple ontologies: An evaluation in the biomedical domain. 141-155 - Lishuang Li, Wenting Fan, Degen Huang, Yanzhong Dang, Jing Sun:
Boosting performance of gene mention tagging system by hybrid methods. 156-164 - Anna M. Ferrante
A transparent and transportable methodology for evaluating Data Linkage software. 165-172 - Anas A. Abu-Doleh, Omar M. Al-Jarrah, Asem Alkhateeb
Protein contact map prediction using multi-stage hybrid intelligence inference systems. 173-183
- Predrag V. Klasnja, Wanda Pratt
Healthcare in the pocket: Mapping the space of mobile-phone health interventions. 184-198
Volume 45, Number 2, April 2012
- Alan L. Rector, Luigi Iannone:
Lexically suggest, logically define: Quality assurance of the use of qualifiers and expected results of post-coordination in SNOMED CT. 199-209 - Yaqiang Wang
A framework and its empirical study of automatic diagnosis of traditional Chinese medicine utilizing raw free-text clinical records. 210-223 - Xiaoyi Wang, Jiying Ling:
Multiple valued logic approach for matching patient records in multiple databases. 224-230 - Stefania Rubrichi
Summary of Product Characteristics content extraction for a safe drugs usage. 231-239 - Joanna Abraham, Thomas George Kannampallil
Bridging gaps in handoffs: A continuity of care based approach. 240-254 - Germain Forestier
Classification of surgical processes using dynamic time warping. 255-264 - Yukun Chen, Subramani Mani, Hua Xu:
Applying active learning to assertion classification of concepts in clinical text. 265-272 - Carlo Combi
Querying temporal clinical databases on granular trends. 273-291 - Jon David Patrick, Min Li:
An ontology for clinical questions about the contents of patient notes. 292-306 - Sarah A. Collins, Lena Mamykina, Desmond A. Jordan, Daniel M. Stein, Alisabeth Shine, Paul Reyfman, David R. Kaufman:
In search of common ground in handoff documentation in an Intensive Care Unit. 307-315 - Dairong Wang, Henry P. Parkman, Michael R. Jacobs, Anurag K. Mishra, Evgeny Krynetskiy, Zoran Obradovic:
DNA microarray SNP associations with clinical efficacy and side effects of domperidone treatment for gastroparesis. 316-322 - Yang Xiang, Kewei Lu, Stephen L. James, Tara Borlawsky, Kun Huang, Philip R. O. Payne
k-Neighborhood decentralization: A comprehensive solution to index the UMLS for large scale knowledge discovery. 323-336 - Watson Wei Khong Chua, Jung-Jae Kim
BOAT: Automatic alignment of biomedical ontologies using term informativeness and candidate selection. 337-349 - Farzana Kabir Ahmad
The inference of breast cancer metastasis through gene regulatory networks. 350-362 - Sachin Mathur, Deendayal Dinakarpandian:
Finding disease similarity based on implicit semantic similarity. 363-371 - Mary F. McGuire, M. Sriram Iyengar, David W. Mercer:
Data driven linear algebraic methods for analysis of molecular pathways: Application to disease progression in shock/trauma. 372-387
- David L. Buckeridge:
Infectious Disease Informatics: Syndromic Surveillance for Public Health and Bio-Defense, Hsinchun Chen, Daniel Zeng, Ping Yan. Springer (2010). 388-389
- Leila Eadie, Paul Taylor
Recommendations for research design and reporting in computer-assisted diagnosis to facilitate meta-analysis. 390-397
Volume 45, Number 3, June 2012
- Mohammad A. Tabatabai, Wayne M. Eby, Zoran Bursac
Oscillabolastic model, a new model for oscillatory dynamics, applied to the analysis of Hes1 gene expression and Ehrlich ascites tumor growth. 401-407 - Sheng Yu, Damon Berry
Clinical coverage of an archetype repository over SNOMED-CT. 408-418 - Daniel R. Masys, Gail P. Jarvik, Neil F. Abernethy, Nicholas R. Anderson
Technical desiderata for the integration of genomic data into Electronic Health Records. 419-422 - Ning Kang, Zubair Afzal
Using an ensemble system to improve concept extraction from clinical records. 423-428 - David Riaño
An ontology-based personalization of health-care knowledge to support clinical decisions for chronically ill patients. 429-446 - Jonathan M. Garibaldi
Incorporation of expert variability into breast cancer treatment recommendation in designing clinical protocol guided fuzzy rule system models. 447-459 - David Juckett:
A method for determining the number of documents needed for a gold standard corpus. 460-470 - Rimma Pivovarov
A hybrid knowledge-based and data-driven approach to identifying semantically similar concepts. 471-481 - C. Maria Keet:
Transforming semi-structured life science diagrams into meaningful domain ontologies with DiDOn. 482-494 - Vassilis Koutkias
Knowledge engineering for adverse drug event prevention: On the design and development of a uniform, contextualized and sustainable knowledge-based framework. 495-506 - Wendy Webber Chapman
Anaphoric reference in clinical reports: Characteristics of an annotated corpus. 507-521 - Shane Steinert-Threlkeld, Siamak Ardekani
Ontological labels for automated location of anatomical shape differences. 522-527 - Mohamed Mysara
MysiRNA: Improving siRNA efficacy prediction using a machine-learning model combining multi-tools and whole stacking energy (ΔG). 528-534 - Longhua Qian, Guodong Zhou
Tree kernel-based protein-protein interaction extraction from biomedical literature. 535-543 - Pravin Pawar, Val Jones, Bert-Jan van Beijnum, Hermie J. Hermens:
A framework for the comparison of mobile patient monitoring systems. 544-556 - Hameedullah Kazi
Employing UMLS for generating hints in a tutoring system for medical problem-based learning. 557-565 - Vassilios P. Aggelidis, Prodromos D. Chatzoglou:
Hospital information systems: Measuring end user computing satisfaction (EUCS). 566-579 - Atish Rajkomar, Ann Blandford
Understanding infusion administration in the ICU through Distributed Cognition. 580-590 - Beilei Zhang, Liz Youngblood, Gerald D. Murphy, Michael Ramsay, Yan Xiao
System engineering approach to documentation: An evaluation of the documentation process in a gastroenterology laboratory. 591-597
- Sarah A. Collins, Leanne M. Currie, Suzanne Bakken, David K. Vawdrey, Patricia W. Stone:
Health literacy screening instruments for eHealth applications: A systematic review. 598-607
Volume 45, Number 4, August 2012
- Elizabeth S. Chen, Genevieve B. Melton
Translating standards into practice: Experiences and lessons learned in biomedicine and health care. 609-612 - Himali Saitwal, David Qing, Stephen Jones, Elmer V. Bernstam
Cross-terminology mapping challenges: A demonstration using medication terminological systems. 613-625 - Li Zhou, Joseph M. Plasek, Lisa M. Mahoney, Frank Y. Chang, Dana DiMaggio, Roberto A. Rocha:
Mapping Partners Master Drug Dictionary to RxNorm using an NLP-based approach. 626-633 - Casey Bennett
Utilizing RxNorm to support practical computing applications: Capturing medication history in live electronic health records. 634-641 - Swapna Abhyankar, Dina Demner-Fushman, Clement J. McDonald:
Standardizing clinical laboratory data for secondary use. 642-650 - Hyeoneui Kim
An approach to improve LOINC mapping through augmentation of local test names. 651-657 - M. C. Lin, Daniel J. Vreeman
Auditing consistency and usefulness of LOINC use among three large institutions - Using version spaces for grouping LOINC codes. 658-666 - Daniel J. Vreeman
Enabling international adoption of LOINC through translation. 667-673 - Philip J. Kroth
Using LOINC to link 10 terminology standards to one unified standard in a specialized domain. 674-682 - Susan Matney
Development of the nursing problem list subset of SNOMED CT®. 683-688 - Christian G. Reich, Patrick B. Ryan, Paul E. Stang, Mitra Rocca:
Evaluation of alternative standardized terminologies for medical conditions within a network of observational healthcare databases. 689-696 - Philip J. Scott
Semantic mapping to simplify deployment of HL7 v3 Clinical Document Architecture. 697-702 - Stéphane M. Meystre
Common data model for natural language processing based on two existing standard information models: CDA+GrAF. 703-710 - Matthias Samwald
The Arden Syntax standard for clinical decision support: Experiences and directions. 711-718 - Karen A. Monsen, Claire Neely, Gary Oftedahl, Madeleine J. Kerr, Pam Pietruszewski, Oladimeji Farri:
Feasibility of encoding the Institute for Clinical Systems Improvement Depression Guideline using the Omaha System. 719-725 - Guilherme Del Fiol
Implementations of the HL7 Context-Aware Knowledge Retrieval ("Infobutton") Standard: Challenges, strengths, limitations, and uptake. 726-735 - Fulvio Barbarito, Francesco Pinciroli, John Mason, Sara Marceglia
Implementing standards for the interoperability among healthcare providers in the public regionalized Healthcare Information System of the Lombardy Region. 736-745 - José Alberto Maldonado
Using the ResearchEHR platform to facilitate the practical application of the EHR standards. 746-762 - Susan Rea, Jyotishman Pathak, Guergana K. Savova, Thomas A. Oniki, Les Westberg, Calvin E. Beebe, Cui Tao
Building a robust, scalable and standards-driven infrastructure for secondary use of EHR data: The SHARPn project. 763-771 - Paul C. Fu Jr., Daniel Rosenthal, Joshua M. Pevnick
The impact of emerging standards adoption on automated quality reporting. 772-781 - Helena F. Deus
Translating standards into practice - One Semantic Web API for Gene Expression. 782-794 - Jorien van der Peijl, Jan Klein, Christian Grass, Adinda Freudenthal:
Design for risk control: The role of usability engineering in the management of use-related risks. 795-812 - Omar Bouhaddou, Tim Cromwell, Mike Davis, Sarah A. Maulden, Nelson Hsing, David Carlson, Jennifer Cockle, Catherine Hoang, Linda Fischetti:
Translating standards into practice: Experience and lessons learned at the Department of Veterans Affairs. 813-823
Volume 45, Number 5, October 2012
- Adrien Coulet
The state of the art in text mining and natural language processing for pharmacogenomics. 825-826 - Rong Xu
A knowledge-driven conditional approach to extract pharmacogenomics specific drug-gene relationships from free text. 827-834 - Bastien Rance
A mutation-centric approach to identifying pharmacogenomic relations in text. 835-841 - Jörg Hakenberg
A SNPshot of PubMed to associate genetic variants with drugs, diseases, and adverse reactions. 842-850 - Fabio Rinaldi
Relation mining experiments in the pharmacogenomics domain. 851-861 - Sergey V. Pakhomov, Bridget T. McInnes, J. Lamba, Y. Liu, Genevieve B. Melton
Using PharmGKB to train text mining approaches for identifying potential gene targets for pharmacogenomic studies. 862-869 - Jiao Li
Systematic identification of pharmacogenomics information from clinical trials. 870-878 - Erik M. van Mulligen
The EU-ADR corpus: Annotated drugs, diseases, targets, and their relationships. 879-884 - Harsha Gurulingappa, Abdul Mateen Rajput, Angus Roberts
Development of a benchmark corpus to support the automatic extraction of drug-related adverse effects from medical case reports. 885-892
- Murat Sariyar, Andreas Borg, Klaus Pommerening:
Active learning strategies for the deduplication of electronic patient data using classification trees. 893-900 - Philip Gooch
Lexical patterns, features and knowledge resources for coreference resolution in clinical notes. 901-912 - Xiao Hu, Monica Sapo, Valeriy Nenov, Tod Barry, Sunghan Kim, Duc H. Do
Predictive combinations of monitor alarms preceding in-hospital code blue events. 913-921 - Tai-Chun Wang, Javid Taheri
Using genetic algorithm in reconstructing single individual haplotype with minimum error correction. 922-930 - Bo Liao, Xiong Li
Multiple ant colony algorithm method for selecting tag SNPs. 931-937 - María Adela Grando
Argumentation logic for the flexible enactment of goal-based medical guidelines. 938-949 - Pamela M. Neri, Stephanie E. Pollard, Lynn A. Volk, Lisa P. Newmark, Matthew Varugheese, Samantha Baxter, Samuel J. Aronson, Heidi L. Rehm
Usability of a novel clinician interface for genetic results. 950-957 - Siddika Parlak, Aleksandra Sarcevic
Introducing RFID technology in dynamic and time-critical medical settings: Requirements and challenges. 958-974 - James F. Brinkley, Landon Detwiler:
A Query Integrator and Manager for the Query Web. 975-991 - Vijay Garla, Cynthia Brandt:
Ontology-guided feature engineering for clinical text classification. 992-998 - Chang Sik Son
Decision-making model for early diagnosis of congestive heart failure using rough set and decision tree approaches. 999-1008 - Arun Sen, Amarnath Banerjee
Clinical decision support: Converging toward an integrated architecture. 1009-1017 - Vojtech Huser:
Process Mining: Discovery, Conformance and Enhancement of Business Processes. 1018-1019
Volume 45, Number 6, December 2012
- Farzaneh Tatari, Mohammad R. Akbarzadeh-Totonchi, Ahmad Sabahi:
Fuzzy-probabilistic multi agent system for breast cancer risk assessment and insurance premium assignment. 1021-1034 - Won Kim, Lana Yeganova
Identifying well-formed biomedical phrases in MEDLINE® text. 1035-1041 - Huanying Gu, Gai Elhanan, Yehoshua Perl, George Hripcsak, James J. Cimino
A study of terminology auditors' performance for UMLS semantic type assignments. 1042-1048 - Trevor Cohen
Discovering discovery patterns with predication-based Semantic Indexing. 1049-1065 - José Salavert Torres
Improving knowledge management through the support of image examination and data annotation using DICOM structured reporting. 1066-1074 - Hua Xu, Yonghui Wu, Noemie Elhadad, Peter D. Stetson, Carol Friedman:
A new clustering method for detecting rare senses of abbreviations in clinical notes. 1075-1083 - Xuan Hung Le, Terry Doll, Monica Barbosu
An enhancement of the Role-Based Access Control model to facilitate information access management in context of team collaboration and workflow. 1084-1107 - Fabio Stella
Continuous time Bayesian network classifiers. 1108-1119 - Fabio Grandi
Efficient management of multi-version clinical guidelines. 1120-1136 - Rachel M. Satter, Trevor Cohen
Avatar-based simulation in the evaluation of diagnosis and management of mental health disorders in primary care. 1137-1150 - Alla Keselman, Catherine Arnott-Smith:
A classification of errors in lay comprehension of medical documents. 1151-1163 - Chih-Lin Chi, W. Nick Street, Jennifer G. Robinson, Matthew A. Crawford:
Individualized patient-centered lifestyle recommendations: An expert system for communicating patient specific cardiovascular risk information and prioritizing lifestyle options. 1164-1174 - Hanen Borchani
Markov blanket-based approach for learning multi-dimensional Bayesian network classifiers: An application to predict the European Quality of Life-5 Dimensions (EQ-5D) from the 39-item Parkinson's Disease Questionnaire (PDQ-39). 1175-1184 - Loubna Bouarfa, Jenny Dankelman:
Workflow mining and outlier detection from clinical activity logs. 1185-1190 - Do Kyoon Kim, Hyunjung Shin, Young Soo Song, Ju Han Kim:
Synergistic effect of different levels of genomic data for cancer clinical outcome prediction. 1191-1198 - Yves A. Lussier
Breakthroughs in genomics data integration for predicting clinical outcome. 1199-1201
- Jan Horsky
Interface design principles for usable decision support: A targeted review of best practices for clinical prescribing interventions. 1202-1216
- Himali Saitwal, David Qing, Stephen Jones, Elmer V. Bernstam
Erratum to "Cross-terminology mapping challenges: A demonstration using medication terminological systems" [J. Biomed. Inform. (2012) 613-625]. 1217
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