Journal: Journal of Biomedical Informatics

Volume 41, Issue 6

863 -- 873Kishore Mosaliganti, Tony Pan, Randall Ridgway, Richard Sharp, Lee Cooper, Alex Gulacy, Ashish Sharma, M. Okan Irfanoglu, Raghu Machiraju, Tahsin M. Kurç, Alain de Bruin, Pamela Wenzel, Gustavo Leone, Joel H. Saltz, Kun Huang. An imaging workflow for characterizing phenotypical change in large histological mouse model datasets
874 -- 881Mehmet Korürek, Ali Nizam. A new arrhythmia clustering technique based on Ant Colony Optimization
882 -- 888Hui Cao, Genevieve B. Melton, Marianthi Markatou, George Hripcsak. Use abstracted patient-specific features to assist an information-theoretic measurement to assess similarity between medical cases
889 -- 903Erez Shalom, Yuval Shahar, Meirav Taieb-Maimon, Guy Bar, Avi Yarkoni, Ohad Young, Susana B. Martins, Laszlo T. Vaszar, Mary K. Goldstein, Yair Liel, Akiva Leibowitz, Tal Marom, Eitan Lunenfeld. A quantitative assessment of a methodology for collaborative specification and evaluation of clinical guidelines
904 -- 913Barry Cohen, Marc Oren, Hua Min, Yehoshua Perl, Michael Halper. Automated comparative auditing of NCIT genomic roles using NCBI
914 -- 926Emma Steele, Allan Tucker. Consensus and Meta-analysis regulatory networks for combining multiple microarray gene expression datasets
927 -- 935Jonathan C. Silverstein, Nigel M. Parsad, Victor Tsirline. Automatic perceptual color map generation for realistic volume visualization
936 -- 943Nenad S. Mitic, Gordana Pavlovic-Lazetic, Milos V. Beljanski. Could n-gram analysis contribute to genomic island determination?
944 -- 952Ray S. Lin, Susan D. Horn, John F. Hurdle, Alexander S. Goldfarb-Rumyantzev. Single and multiple time-point prediction models in kidney transplant outcomes
953 -- 961Yao-Ting Huang, Kun-Mao Chao. A new framework for the selection of tag SNPs by multimarker haplotypes
962 -- 981Adam Wright, Dean F. Sittig. SANDS: A service-oriented architecture for clinical decision support in a National Health Information Network
982 -- 990Adam Wright, Dean F. Sittig. A framework and model for evaluating clinical decision support architectures
991 -- 1000Richard Moreau, V. Ochoa, Minh Tu Pham, Pierre Boulanger, Tanneguy Redarce, Olivier Dupuis. A method to evaluate skill transfer and acquisition of obstetric gestures based on the curvatures analysis of the position and the orientation
1001 -- 1008Eric S. Hall, Mollie R. Poynton, Scott P. Narus, Sidney N. Thornton. Modeling the distribution of Nursing Effort using structured Labor and Delivery documentation
1009 -- 1020Brian C. Drolet, Kevin B. Johnson. Categorizing the world of registries
1021 -- 1027Tai-Been Chen, Henry Horng-Shing Lu, Yun-Shien Lee, Hsiu-Jen Lan. Segmentation of cDNA microarray images by kernel density estimation
1028 -- 1040Mor Peleg, Dizza Beimel, Dov Dori, Yaron Denekamp. Situation-Based Access Control: Privacy management via modeling of patient data access scenarios
1041 -- 1049Christa E. Bartos, Douglas B. Fridsma, Brian S. Butler, Louis E. Penrod, Michael J. Becich, Rebecca S. Crowley. Development of an instrument for measuring clinicians power perceptions in the workplace
1050 -- 1052Murat Cokol, Raul Rodriguez-Esteban. Visualizing evolution and impact of biomedical fields
1053 -- 1061Ismail Abbas, Joan Rovira, Josep Casanovas, Tony Greenfield. Optimal design of clinical trials with computer simulation based on results of earlier trials, illustrated with a lipodystrophy trial in HIV patients
1062 -- 1069James E. Andrews, Timothy B. Patrick, Rachel L. Richesson, Hana Brown, Jeffrey P. Krischer. Comparing heterogeneous SNOMED CT coding of clinical research concepts by examining normalized expressions
1070 -- 1087Trevor Cohen, Brett Blatter, Vimla L. Patel. Simulating expert clinical comprehension: Adapting latent semantic analysis to accurately extract clinical concepts from psychiatric narrative
1088 -- 1100Guergana K. Savova, Anni Coden, Igor L. Sominsky, Rie Johnson, Philip V. Ogren, Piet C. de Groen, Christopher G. Chute. Word sense disambiguation across two domains: Biomedical literature and clinical notes

Volume 41, Issue 5

683 -- 686Kei-Hoi Cheung, Vipul Kashyap, Joanne Luciano, Huajun Chen, Yimin Wang, Susie Stephens. Semantic mashup of biomedical data
687 -- 693Carole A. Goble, Robert Stevens. State of the nation in data integration for bioinformatics
694 -- 705Kei-Hoi Cheung, Kevin Y. Yip, Jeffrey P. Townsend, Matthew Scotch. HCLS 2.0/3.0: Health care and life sciences data mashup using Web 2.0/3.0
706 -- 716François Belleau, Marc-Alexandre Nolin, Nicole Tourigny, Philippe Rigault, Jean Morissette. Bio2RDF: Towards a mashup to build bioinformatics knowledge systems
717 -- 729Ranga Chandra Gudivada, Xiaoyan A. Qu, Jing Chen, Anil G. Jegga, Eric K. Neumann, Bruce J. Aronow. Identifying disease-causal genes using Semantic Web-based representation of integrated genomic and phenomic knowledge
730 -- 738Sapna Bafna, Julian Humphries, Daniel P. Miranker. Schema driven assignment and implementation of life science identifiers (LSIDs)
739 -- 751Paolo Ciccarese, Elizabeth Wu, Gwendolyn T. Wong, Marco Ocana, June Kinoshita, Alan Ruttenberg, Tim Clark. The SWAN biomedical discourse ontology
752 -- 765Satya Sanket Sahoo, Olivier Bodenreider, Joni L. Rutter, Karen J. Skinner, Amit P. Sheth. An ontology-driven semantic mashup of gene and biological pathway information: Application to the domain of nicotine dependence
766 -- 778Lynda Temal, Michel Dojat, Gilles Kassel, Bernard Gibaud. Towards an ontology for sharing medical images and regions of interest in neuroimaging
779 -- 789Natalia Villanueva-Rosales, Michel Dumontier. yOWL: An ontology-driven knowledge base for yeast biologists
790 -- 805Yuxin Mao, Zhaohui Wu, Wenya Tian, Xiaohong Jiang, William K. Cheung. Dynamic sub-ontology evolution for traditional Chinese medicine web ontology
806 -- 815Menaka Rajapakse, Kanagasabai Rajaraman, Wee Tiong Ang, Anitha Veeramani, Mark J. Schreiber, Christopher J. O. Baker. Ontology-centric integration and navigation of the dengue literature
816 -- 828Vít Novácek, Loredana Laera, Siegfried Handschuh, Brian Davis. Infrastructure for dynamic knowledge integration - Automated biomedical ontology extension using textual resources
829 -- 836Jiangbo Dang, Amir Hedayati, Ken Hampel, Candemir Toklu. An ontological knowledge framework for adaptive medical workflow
837 -- 847Michael DiBernardo, Rachel Pottinger, Mark Wilkinson. Semi-automatic web service composition for the life sciences using the BioMoby semantic web framework
848 -- 859Francisco García Sánchez, Jesualdo Tomás Fernández-Breis, Rafael Valencia-García, Juan Miguel Gómez, Rodrigo Martínez-Béjar. Combining Semantic Web technologies with Multi-Agent Systems for integrated access to biological resources

Volume 41, Issue 4

499 -- 514Muhammad Shoaib B. Sehgal, Iqbal Gondal, Laurence S. Dooley, Ross L. Coppel. Ameliorative missing value imputation for robust biological knowledge inference
515 -- 529Marcel van Gerven, Babs G. Taal, Peter J. F. Lucas. Dynamic Bayesian networks as prognostic models for clinical patient management
530 -- 543Xiaogang Ruan, Jinlian Wang, Hui Li, Rhoda E. Perozzi, Edmund F. Perozzi. The use of logic relationships to model colon cancer gene expression networks with mRNA microarray data
544 -- 556P. Berchialla, A. Stancu, C. Scarinzi, S. Snidero, R. Corradetti, D. Gregori. Web-based tool for injury risk assessment of foreign body injuries in children
557 -- 569Isabella Scandurra, Maria Hägglund, Sabine Koch. From user needs to system specifications: Multi-disciplinary thematic seminars as a collaborative design method for development of health information systems
570 -- 579Hsi-Che Liu, Chien-Yu Chen, Yu-Ting Liu, Cheng-Bang Chu, Der-Cherng Liang, Lee-Yung Shih, Chih-Jen Lin. Cross-generation and cross-laboratory predictions of Affymetrix microarrays by rank-based methods
580 -- 587Zhihao Yang, Hongfei Lin, Yanpeng Li. Exploiting the contextual cues for bio-entity name recognition in biomedical literature
588 -- 601Igor Trajkovski, Nada Lavrac, Jakub Tolar. SEGS: Search for enriched gene sets in microarray data
602 -- 606Weixiang Liu, Kehong Yuan, Datian Ye. Reducing microarray data via nonnegative matrix factorization for visualization and clustering analysis
607 -- 612C. George Priya Doss, C. Sudandiradoss, R. Rajasekaran, Rituraj Purohit, K. Ramanathan, Rao Sethumadhavan. Identification and structural comparison of deleterious mutations in nsSNPs of ABL1 gene in chronic myeloid leukemia: A bio-informatics study
613 -- 623Jagan Dara, John N. Dowling, Debbie Travers, Gregory F. Cooper, Wendy Webber Chapman. Evaluation of preprocessing techniques for chief complaint classification
624 -- 635Cornelia M. Ruland, Justin Starren, Torun M. Vatne. Participatory design with children in the development of a support system for patient-centered care in pediatric oncology
636 -- 654Ben Medlock. Exploring hedge identification in biomedical literature
655 -- 666Guilherme Del Fiol, Peter J. Haug. Infobuttons and classification models: A method for the automatic selection of on-line information resources to fulfill clinicians information needs
667 -- 674Vladimir Brtka, Edith Stokic, Biljana Srdic. Automated extraction of decision rules for leptin dynamics - A rough sets approach
675 -- 682Aykut M. Uslu, Jürgen Stausberg. Value of the electronic patient record: An analysis of the literature

Volume 41, Issue 3

409 -- 412Tze-Yun Leong, Dominik Aronsky, M. Michael Shabot. Computer-based decision support for critical and emergency care
413 -- 431Vimla L. Patel, Jiajie Zhang, Nicole A. Yoskowitz, Robert Green, Osman R. Sayan. Translational cognition for decision support in critical care environments: A review
432 -- 441María M. Abad-Grau, Jorge Ierache, Claudio Cervino, Paola Sebastiani. Evolution and challenges in the design of computational systems for triage assistance
442 -- 451Anton Aboukhalil, Larry Nielsen, Mohammed Saeed, Roger G. Mark, Gari D. Clifford. Reducing false alarm rates for critical arrhythmias using the arterial blood pressure waveform
452 -- 460Ying Zhang, Peter Szolovits. Patient-specific learning in real time for adaptive monitoring in critical care
461 -- 468D. Sorenson, C. K. Grissom, L. Carpenter, A. Austin, K. Sward, L. Napoli, H. R. Warner, A. H. Morris. A frame-based representation for a bedside ventilator weaning protocol
469 -- 478Liangyou Chen, Thomas M. McKenna, Andrew T. Reisner, Andrei V. Gribok, Jaques Reifman. Decision tool for the early diagnosis of trauma patient hypovolemia
479 -- 487Madhu C. Reddy, M. Michael Shabot, Erin Bradner. Evaluating collaborative features of critical care systems: A methodological study of information technology in surgical intensive care units
488 -- 497K. Sward, J. Orme Jr., D. Sorenson, L. Baumann, A. H. Morris. Reasons for declining computerized insulin protocol recommendations: Application of a framework

Volume 41, Issue 2

217 -- 223Lefteris Gortzis, George Nikiforidis. Tracing and cataloguing knowledge in an e-health cardiology environment
224 -- 231Yanna Shen, Christina Adamou, John N. Dowling, Gregory F. Cooper. Estimating the joint disease outbreak-detection time when an automated biosurveillance system is augmenting traditional clinical case finding
232 -- 241Jihun Kim, Hee-Joon Chung, Yong Jung, Kack-Kyun Kim, Ju Han Kim. BioLattice: A framework for the biological interpretation of microarray gene expression data using concept lattice analysis
242 -- 250Susan Maskery, Hai Hu, Jeffrey Hooke, Craig D. Shriver, Michael N. Liebman. A Bayesian derived network of breast pathology co-occurrence
251 -- 263Ion-Florin Talos, Daniel L. Rubin, Michael Halle, Mark A. Musen, Ron Kikinis. A prototype symbolic model of canonical functional neuroanatomy of the motor system
264 -- 271Xingwei Wang, Shibo Li, Hong Liu, Marc Wood, Wei R. Chen, Bin Zheng. Automated identification of analyzable metaphase chromosomes depicted on microscopic digital images
272 -- 281Bo Geng, Xiaobo Zhou, Jinmin Zhu, Y. S. Hung, Stephen T. C. Wong. Comparison of reversible-jump Markov-chain-Monte-Carlo learning approach with other methods for missing enzyme identification
282 -- 292Waclaw Kusnierczyk. Taxonomy-based partitioning of the Gene Ontology
293 -- 317Yan Chen, Yehoshua Perl, James Geller, George Hripcsak, Li Zhang. Comparing and consolidating two heuristic metaschemas
318 -- 326Siriwan Suebnukarn, Peter Haddawy, Phattanapon Rhienmora. A collaborative medical case authoring environment based on the UMLS
327 -- 339Sofie Pilemalm, Toomas Timpka. Third generation participatory design in health informatics - Making user participation applicable to large-scale information system projects
340 -- 356Hsin-Min Lu, Daniel Zeng, Lea Trujillo, Ken Komatsu, Hsinchun Chen. Ontology-enhanced automatic chief complaint classification for syndromic surveillance
357 -- 370Peter W. Hung, Stephen B. Johnson, David R. Kaufman, Eneida A. Mendonça. A multi-level model of information seeking in the clinical domain
371 -- 386Chih-Lin Chi, W. Nick Street, Marcia M. Ward. Building a hospital referral expert system with a Prediction and Optimization-Based Decision Support System algorithm
387 -- 392Dean F. Sittig, Adam Wright, Jerome A. Osheroff, Blackford Middleton, Jonathan M. Teich, Joan S. Ash, Emily Campbell, David W. Bates. Grand challenges in clinical decision support
393 -- 407Deyu Zhou, Yulan He. Extracting interactions between proteins from the literature

Volume 41, Issue 1

1 -- 14Jau-Huei Lin, Peter J. Haug. Exploiting missing clinical data in Bayesian network modeling for predicting medical problems
15 -- 23Fatma Latifoglu, Kemal Polat, Sadik Kara, Salih Günes. Medical diagnosis of atherosclerosis from Carotid Artery Doppler Signals using principal component analysis (PCA), k-NN based weighting pre-processing and Artificial Immune Recognition System (AIRS)
24 -- 32Paolo Contiero, Andrea Tittarelli, Anna Maghini, Sabrina Fabiano, Emanuela Frassoldi, Enrica Costa, Daniela Gada, Tiziana Codazzi, Paolo Crosignani, Roberto Tessandori, Giovanna Tagliabue. Comparison with manual registration reveals satisfactory completeness and efficiency of a computerized cancer registration system
33 -- 45Joan Valls, Mònica Grau, Xavier Solé, Pilar Hernández, David Montaner, Joaquín Dopazo, Miguel A. Peinado, Gabriel Capellá, Víctor Moreno, Miguel Angel Pujana. CLEAR-test: Combining inference for differential expression and variability in microarray data analysis
46 -- 57Guy Tsafnat. The Field Representation Language
58 -- 64M. Elliot, K. Purdam, D. Smith. Statistical disclosure control architectures for patient records in biomedical information systems
65 -- 81Razib M. Othman, Safaai Deris, Rosli M. Illias. A genetic similarity algorithm for searching the Gene Ontology terms and annotating anonymous protein sequences
82 -- 94Magnus Irestig, Toomas Timpka. Politics and technology in health information systems development: A discourse analysis of conflicts addressed in a systems design group
95 -- 105Hau-San Wong, Hong-Qiang Wang. Constructing the gene regulation-level representation of microarray data for cancer classification
106 -- 123George A. Komatsoulis, Denise B. Warzel, Francis W. Hartel, Krishnakant Shanbhag, Ram Chilukuri, Gilberto Fragoso, Sherri de Coronado, Dianne M. Reeves, Jillaine B. Hadfield, Christophe Ludet, Peter A. Covitz. caCORE version 3: Implementation of a model driven, service-oriented architecture for semantic interoperability
124 -- 136Hyunjin Shin, Bryan Sheu, Maria Joseph, Mia K. Markey. Guilt-by-association feature selection: Identifying biomarkers from proteomic profiles
137 -- 151A. Narasimhadevara, Thiruvengadam Radhakrishnan, B. Leung, R. Jayakumar. On designing a usable interactive system to support transplant nursing
152 -- 164Nathan C. Hulse, Guilherme Del Fiol, Richard L. Bradshaw, Lorrie K. Roemer, Roberto A. Rocha. Towards an on-demand peer feedback system for a clinical knowledge base: A case study with order sets
165 -- 179Themis P. Exarchos, Costas Papaloukas, Christos Lampros, Dimitrios I. Fotiadis. Mining sequential patterns for protein fold recognition
180 -- 201Mor Peleg, Sagi Keren, Yaron Denekamp. Mapping computerized clinical guidelines to electronic medical records: Knowledge-data ontological mapper (KDOM)
202 -- 216Theodosios Theodosiou, Lefteris Angelis, Athena Vakali. Non-linear correlation of content and metadata information extracted from biomedical article datasets