Journal of the American Medical Informatics Association, Volume 20

Volume 20, Number 1, January 2013

Highlights

• 
  Lucila Ohno-Machado:
  Sharing data for the public good and protecting individual privacy: informatics solutions to combine different goals. 1

Focus on patient privacy

• 
  Bradley A. Malin, Khaled El Emam, Christine M. O'Keefe:
  Biomedical data privacy: problems, perspectives, and recent advances. 2-6
• 
  Kelly Caine, Rima Hanania:
  Patients want granular privacy control over health information in electronic medical records. 7-15
• 
  Maja van der Velden, Khaled El Emam:
  "Not all my friends need to know": a qualitative study of teenage patients, privacy, and social media. 16-24
• 
  Caitlin Pencarrick Hertzman, Nancy Meagher, Kimberlyn M. McGrail:
  Privacy by Design at Population Data BC: a case study describing the technical, administrative, and physical controls for privacy-sensitive secondary use of personal information for research in the public interest. 25-28
• 
  Deven McGraw:
  Building public trust in uses of Health Insurance Portability and Accountability Act de-identified data. 29-34
• 
  Carolyn Petersen, Paul DeMuro, Kenneth W. Goodman, Bonnie Kaplan:
  Sorrell v. IMS Health: issues and opportunities for informaticians. 35-37
• 
  Patricia Kosseim, Daryl Pullman, Astrid Perrot-Daley, Kathy Hodgkinson, Catherine Street, Proton Rahman:
  Privacy protection and public goods: building a genetic database for health research in Newfoundland and Labrador. 38-43
• 
  Juhee Kwon, M. Eric Johnson:
  Security practices and regulatory compliance in the healthcare industry. 44-51
• 
  Daniel Fabbri, Kristen LeFevre:
  Explaining accesses to electronic medical records using diagnosis information. 52-60
• 
  Ryen White, Eric Horvitz:
  From web search to healthcare utilization: privacy-sensitive studies from mobile data. 61-68
• 
  Christopher A. Cassa, Rachel A. Miller, Kenneth D. Mandl:
  A novel, privacy-preserving cryptographic approach for sharing sequencing data. 69-76
• 
  Óscar Ferrández, Brett R. South, Shuying Shen, F. Jeffrey Friedlin, Matthew H. Samore, Stéphane M. Meystre:
  BoB, a best-of-breed automated text de-identification system for VHA clinical documents. 77-83
• 
  Louise Deléger, Katalin Molnár, Guergana Savova, Fei Xia, Todd Lingren, Qi Li, Keith Marsolo, Anil G. Jegga, Megan Kaiser, Laura Stoutenborough, Imre Solti:
  Large-scale evaluation of automated clinical note de-identification and its impact on information extraction. 84-94
• 
  Ravi V. Atreya, Joshua C. Smith, Allison B. McCoy, Bradley A. Malin, Randolph A. Miller:
  Reducing patient re-identification risk for laboratory results within research datasets. 95-101
• 
  Cynthia Dwork, Rebecca Pottenger:
  Toward practicing privacy. 102-108
• 
  James J. Gardner, Li Xiong, Yonghui Xiao, Jingjing Gao, Andrew R. Post, Xiaoqian Jiang, Lucila Ohno-Machado:
  SHARE: system design and case studies for statistical health information release. 109-116

Focus on data sharing

• 
  George Hripcsak, David J. Albers:
  Next-generation phenotyping of electronic health records. 117-121
• 
  Keith Marsolo:
  Informatics and operations - let's get integrated. 122-124
• 
  Daniela M. Witten, Robert Tibshirani:
  Scientific research in the age of omics: the good, the bad, and the sloppy. 125-127
• 
  Toni R. Farley, Jeff Kiefer, Preston Lee, Daniel Von Hoff, Jeffrey M. Trent, Charles J. Colbourn, Spyro Mousses:
  The BioIntelligence Framework: a new computational platform for biomedical knowledge computing. 128-133
• 
  Caitlin M. Cusack, George Hripcsak, Meryl Bloomrosen, S. Trent Rosenbloom, Charlotte A. Weaver, Adam Wright, David K. Vawdrey, Jim Walker, Lena Mamykina:
  The future state of clinical data capture and documentation: a report from AMIA's 2011 Policy Meeting. 134-140
• 
  Kenneth W. Goodman, Samantha A. Adams, Eta S. Berner, Peter J. Embí, Robert C. Hsiung, John F. Hurdle, Dixie A. Jones, Christoph U. Lehmann, Sarah A. Maulden, Carolyn Petersen, Enrique Terrazas, Peter Winkelstein:
  AMIA's Code of Professional and Ethical Conduct. 141-143
• 
  Nicole Gray Weiskopf, Chunhua Weng:
  Methods and dimensions of electronic health record data quality assessment: enabling reuse for clinical research. 144-151
• 
  Jessica S. Ancker, Michael D. Silver, Melissa C. Miller, Rainu Kaushal:
  Consumer experience with and attitudes toward health information technology: a nationwide survey. 152-156
• 
  Yaorong Ge, David K. Ahn, Bhagyashree Unde, H. Donald Gage, John Jeffrey Carr:
  Patient-controlled sharing of medical imaging data across unaffiliated healthcare organizations. 157-163
• 
  John F. Hurdle, Stephen C. Haroldsen, Andrew Hammer, Cindy Spigle, Alison M. Fraser, Geraldine P. Mineau, Samir J. Courdy:
  Identifying clinical/translational research cohorts: ascertainment via querying an integrated multi-source database. 164-171
• 
  Marc D. Natter, Justin Quan, David M. Ortiz, Athos Bousvaros, Norman T. Ilowite, Christi J. Inman, Keith Marsolo, Andrew J. McMurry, Christy Sandborg, Laura E. Schanberg, Carol A. Wallace, Robert W. Warren, Griffin M. Weber, Kenneth D. Mandl:
  An i2b2-based, generalizable, open source, self-scaling chronic disease registry. 172-179
• 
  David Cumin, Vanessa Newton-Wade, Michael J. Harrison, Alan F. Merry:
  Two open access, high-quality datasets from anesthetic records. 180-183
• 
  Paul Avillach, Preciosa M. Coloma, Rosa Gini, Martijn J. Schuemie, Fleur Mougin, Jean-Charles Dufour, Giampiero Mazzaglia, Carlo Giaquinto, Carla Fornari, Ron Herings, Mariam Molokhia, Lars Pedersen, Annie Fourrier-Réglat, Marius Fieschi, Miriam C. J. M. Sturkenboom, Johan van der Lei, Antoine Pariente, Gianluca Trifirò:
  Harmonization process for the identification of medical events in eight European healthcare databases: the experience from the EU-ADR project. 184-192
• 
  Stephen G. Jones, Steven Coulter, William Conner:
  Using administrative medical claims data to supplement state disease registry systems for reporting zoonotic infections. 193-198
• 
  Kensaku Kawamoto, Tonya Hongsermeier, Adam Wright, Janet Lewis, Douglas S. Bell, Blackford Middleton:
  Key principles for a national clinical decision support knowledge sharing framework: synthesis of insights from leading subject matter experts. 199-207

Messages from AMIA

• 
  Kevin M. Fickenscher:
  President's column: An AMIA update - new directions and new opportunities. 208-210

Volume 20, Number 2, March 2013

Highlights

• 
  Lucila Ohno-Machado:
  Informatics that works for you. 211

Perspectives

• 
  Thomas H. Payne, David W. Bates, Eta S. Berner, Elmer V. Bernstam, H. Dominic Covvey, Mark E. Frisse, Thomas Graf, Robert A. Greenes, Edward P. Hoffer, Gilad J. Kuperman, Harold P. Lehmann, Louise Liang, Blackford Middleton, Gilbert S. Omenn, Judy G. Ozbolt:
  Healthcare information technology and economics. 212-217
• 
  Howard R. Strasberg, Guilherme Del Fiol, James J. Cimino:
  Terminology challenges implementing the HL7 context-aware knowledge retrieval ('Infobutton') standard. 218-223
• 
  Charles P. Friedman:
  What informatics is and isn't. 224-226

Focus on health information technology

• 
  Joshua R. Vest, Jangho Yoon, Brian H. Bossak:
  Changes to the electronic health records market in light of health information technology certification and meaningful use. 227-232
• 
  Christopher A. Harle, Timothy R. Huerta, Eric W. Ford, Mark L. Diana, Nir Menachemi:
  Overcoming challenges to achieving meaningful use: insights from hospitals that successfully received Centers for Medicare and Medicaid Services payments in 2011. 233-237
• 
  Juan Eugenio Hernández-Ávila, Lina Sofia Palacio-Mejía, Agustín Lara-Esqueda, Eva Silvestre, Marcela Agudelo-Botero, Mark L. Diana, David R. Hotchkiss, Beatriz Plaza, Alicia Sanchez Parbul:
  Assessing the process of designing and implementing electronic health records in a statewide public health system: the case of Colima, Mexico. 238-244
• 
  Gail M. Keenan, Elizabeth Yakel, Karen Dunn Lopez, Dana Tschannen, Yvonne B. Ford:
  Challenges to nurses' efforts of retrieving, documenting, and communicating patient care information. 245-251
• 
  Peter Hoonakker, Pascale Carayon, Roger L. Brown, Randi S. Cartmill, Tosha B. Wetterneck, James M. Walker:
  Changes in end-user satisfaction with Computerized Provider Order Entry over time among nurses and providers in intensive care units. 252-259
• 
  Brian Hilligoss, Kai Zheng:
  Chart biopsy: an emerging medical practice enabled by electronic health records and its impacts on emergency department-inpatient admission handoffs. 260-267
• 
  Namita L. Tundia, Christina M. L. Kelton, Teresa M. Cavanaugh, Jeff J. Guo, Dennis J. Hanseman, Pamela C. Heaton:
  The effect of electronic medical record system sophistication on preventive healthcare for women. 268-276
• 
  Sara J. Czaja, Joseph Sharit, Chin Chin Lee, Sankaran Nair, Mario A. Hernández, Neysarí Arana, Shih Hua Fu:
  Factors influencing use of an e-health website in a community sample of older adults. 277-284
• 
  Mehmet Kuzu, Murat Kantarcioglu, Elizabeth Ashley Durham, Csaba Tóth, Bradley A. Malin:
  A practical approach to achieve private medical record linkage in light of public resources. 285-292
• 
  Christian Zunner, Thomas Bürkle, Hans-Ulrich Prokosch, Thomas Ganslandt:
  Mapping local laboratory interface terms to LOINC at a German university hospital using RELMA V.5: a semi-automated approach. 293-297
• 
  Ricardo Sánchez-de-Madariaga, Adolfo Muñoz Carrero, Jesús Cáceres Tello, Roberto Somolinos, Mario Pascual Carrasco, Ignacio Martínez, Carlos Hernández Salvador, Jose Luis Monteagudo:
  ccML, a new mark-up language to improve ISO/EN 13606-based electronic health record extracts practical edition. 298-304

Focus on clinical decision support

• 
  Jason S. Adelman, Gary E. Kalkut, Clyde B. Schechter, Jeffrey M. Weiss, Matthew A. Berger, Stan H. Reissman, Hillel W. Cohen, Stephen J. Lorenzen, Daniel A. Burack, William N. Southern:
  Understanding and preventing wrong-patient electronic orders: a randomized controlled trial. 305-310
• 
  Aaron E. Carroll, Paul G. Biondich, Vibha Anand, Tamara M. Dugan, Stephen M. Downs:
  A randomized controlled trial of screening for maternal depression with a clinical decision support system. 311-316
• 
  Arch G. Mainous III, Carol A. Lambourne, Paul J. Nietert:
  Impact of a clinical decision support system on antibiotic prescribing for acute respiratory infections in primary care: quasi-experimental trial. 317-324
• 
  Torbjørn Torsvik, Børge Lillebo, Gustav Mikkelsen:
  Presentation of clinical laboratory results: an experimental comparison of four visualization techniques. 325-331
• 
  David A. Hanauer, Naren Ramakrishnan:
  Modeling temporal relationships in large scale clinical associations. 332-341
• 
  David Carrell, Bradley A. Malin, John S. Aberdeen, Samuel Bayer, Cheryl Clark, Ben Wellner, Lynette Hirschman:
  Hiding in plain sight: use of realistic surrogates to reduce exposure of protected health information in clinical text. 342-348
• 
  Justin A. Strauss, Chun R. Chao, Marilyn L. Kwan, Syed A. Ahmed, Joanne E. Schottinger, Virginia P. Quinn:
  Identifying primary and recurrent cancers using a SAS-based natural language processing algorithm. 349-355
• 
  Prateek Jindal, Dan Roth:
  Using domain knowledge and domain-inspired discourse model for coreference resolution for clinical narratives. 356-362
• 
  Nancy L. Wilczynski, K. Ann McKibbon, Stephen D. Walter, Amit X. Garg, R. Brian Haynes:
  MEDLINE clinical queries are robust when searching in recent publishing years. 363-368

Brief communications

• 
  Jeroen S. de Bruin, Klaus-Peter Adlassnig, Alexander Blacky, Harald Mandl, Karsten Fehre, Walter Koller:
  Effectiveness of an automated surveillance system for intensive care unit-acquired infections. 369-372
• 
  Carlos Francisco Ríos-Bedoya, Casey Hay:
  Feasibility of using text messaging for unhealthy behaviors screening in a clinical setting: a case study on adolescent hazardous alcohol use. 373-376

Case reports

• 
  Ruchi Tiwari, Demetra S. Tsapepas, Jaclyn T. Powell, Spencer T. Martin:
  Enhancements in healthcare information technology systems: customizing vendor-supplied clinical decision support for a high-risk patient population. 377-380
• 
  Melchor Sánchez-Mendiola, Adrián I. Martínez-Franco, Argelia Rosales-Vega, Joel Villamar-Chulin, Florina Gatica-Lara, Rocío García-Durán, Adrián Martínez-González:
  Development and implementation of a biomedical informatics course for medical students: challenges of a large-scale blended-learning program. 381-387

Review

• 
  Brandon M. Welch, Kensaku Kawamoto:
  Clinical decision support for genetically guided personalized medicine: a systematic review. 388-400

Messages from AMIA

• 
  Kevin M. Fickenscher:
  President's column: AMIA - Expanding and Extending Our Reach. 401-402

Volume 20, Number 3, May 2013

Highlights

• 
  Lucila Ohno-Machado:
  Health surveillance using the internet and other sources of information. 403

Brief communications

• 
  Ryen W. White, Nicholas P. Tatonetti, Nigam H. Shah, Russ B. Altman, Eric Horvitz:
  Web-scale pharmacovigilance: listening to signals from the crowd. 404-408
• 
  Matthias Samwald, Klaus-Peter Adlassnig:
  Pharmacogenomics in the pocket of every patient? A prototype based on quick response codes. 409-412

Research and applications

• 
  Rave Harpaz, Santiago Vilar, William DuMouchel, Hojjat Salmasian, Krystl Haerian, Nigam H. Shah, Herbert S. Chase, Carol Friedman:
  Combing signals from spontaneous reports and electronic health records for detection of adverse drug reactions. 413-419
• 
  Mei Liu, Eugenia Renne McPeek Hinz, Michael Edwin Matheny, Joshua C. Denny, Jonathan Scott Schildcrout, Randolph A. Miller, Hua Xu:
  Comparative analysis of pharmacovigilance methods in the detection of adverse drug reactions using electronic medical records. 420-426
• 
  Marco F. Cusumano-Towner, Daniel Y. Li, Shanshan Tuo, Gomathi Krishnan, David M. Maslove:
  A social network of hospital acquired infection built from electronic medical record data. 427-434
• 
  Karen Elizabeth Cheng, David J. Crary, Jaideep Ray, Cosmin Safta:
  Structural models used in real-time biosurveillance outbreak detection and outbreak curve isolation from noisy background morbidity levels. 435-440
• 
  Reena Mahajan, Anne C. Moorman, Stephen J. Liu, Loralee Rupp, R. Monina Klevens:
  Use of the International Classification of Diseases, 9th revision, coding in identifying chronic hepatitis B virus infection in health system data: implications for national surveillance. 441-445
• 
  Paul Avillach, Jean-Charles Dufour, Gayo Diallo, Francesco Salvo, Michel Joubert, Frantz Thiessard, Fleur Mougin, Gianluca Trifirò, Annie Fourrier-Réglat, Antoine Pariente, Marius Fieschi:
  Design and validation of an automated method to detect known adverse drug reactions in MEDLINE: a contribution from the EU-ADR project. 446-452
• 
  Khaled El Emam, Saeed Samet, Luk Arbuckle, Robyn Tamblyn, Craig Earle, Murat Kantarcioglu:
  A secure distributed logistic regression protocol for the detection of rare adverse drug events. 453-461
• 
  Noman Mohammed, Xiaoqian Jiang, Rui Chen, Benjamin C. M. Fung, Lucila Ohno-Machado:
  Privacy-preserving heterogeneous health data sharing. 462-469
• 
  David C. Radley, Melanie R. Wasserman, Lauren E. W. Olsho, Sarah J. Shoemaker, Mark Spranca, Bethany Bradshaw:
  Reduction in medication errors in hospitals due to adoption of computerized provider order entry systems. 470-476
• 
  William L. Galanter, Suzanne Falck, Matthew Burns, Marci Laragh, Bruce L. Lambert:
  Indication-based prescribing prevents wrong-patient medication errors in computerized provider order entry (CPOE). 477-481
• 
  Kin Wah Fung, Chiang S. Jao, Dina Demner-Fushman:
  Extracting drug indication information from structured product labels using natural language processing. 482-488
• 
  Shobha Phansalkar, Heleen van der Sijs, Alisha D. Tucker, Amrita A. Desai, Douglas S. Bell, Jonathan M. Teich, Blackford Middleton, David W. Bates:
  Drug-drug interactions that should be non-interruptive in order to reduce alert fatigue in electronic health records. 489-493
• 
  Jon D. Duke, Xiaochun Li, Paul R. Dexter:
  Adherence to drug-drug interaction alerts in high-risk patients: a trial of context-enhanced alerting. 494-498
• 
  Margaret V. McDonald, Timothy R. Peng, Sridevi Sridharan, Janice B. Foust, Polina Kogan, Liliana E. Pezzin, Penny H. Feldman:
  Automating the medication regimen complexity index. 499-505
• 
  Mei-Sing Ong, Farah Magrabi, Enrico W. Coiera:
  Syndromic surveillance for health information system failures: a feasibility study. 506-512
• 
  Gabrielle M. Turner-McGrievy, Michael W. Beets, Justin B. Moore, Andrew T. Kaczynski, Daheia J. Barr-Anderson, Deborah F. Tate:
  Comparison of traditional versus mobile app self-monitoring of physical activity and dietary intake among overweight adults participating in an mHealth weight loss program. 513-518
• 
  Ashley E. Wade-Vuturo, Lindsay Satterwhite Mayberry, Chandra Y. Osborn:
  Secure messaging and diabetes management: experiences and perspectives of patient portal users. 519-525
• 
  Paul C. Tang, J. Marc Overhage, Albert Solomon Chan, Nancy L. Brown, Bahar Aghighi, Martin P. Entwistle, Siu Lui Hui, Shauna M. Hyde, Linda H. Klieman, Charlotte J. Mitchell, Anthony J. Perkins, Lubna Qureshi, Tanya A. Waltimyer, Leigha J. Winters, Charles Y. Young:
  Online disease management of diabetes: Engaging and Motivating Patients Online With Enhanced Resources-Diabetes (EMPOWER-D), a randomized controlled trial. 526-534
• 
  Mathias Kaspar, Nigel M. Parsad, Jonathan C. Silverstein:
  An optimized web-based approach for collaborative stereoscopic medical visualization. 535-543
• 
  David M. Maslove, Tanya Podchiyska, Henry J. Lowe:
  Discretization of continuous features in clinical datasets. 544-553
• 
  Cui Tao, Guoqian Jiang, Thomas A. Oniki, Robert R. Freimuth, Qian Zhu, Deepak K. Sharma, Jyotishman Pathak, Stanley M. Huff, Christopher G. Chute:
  A semantic-web oriented representation of the clinical element model for secondary use of electronic health records data. 554-562

Case report

• 
  Gregory William Hruby, James McKiernan, Suzanne Bakken, Chunhua Weng:
  A centralized research data repository enhances retrospective outcomes research capacity: a case report. 563-567

Reviews

• 
  Erin Mathieu, Kevin McGeechan, Alexandra Barratt, Robert Herbert:
  Internet-based randomized controlled trials: a systematic review. 568-576
• 
  Brian E. Dixon, Roland E. Gamache, Shaun J. Grannis:
  Towards public health decision support: a systematic review of bidirectional communication approaches. 577-583
• 
  Judy Reed Edworthy:
  Medical audible alarms: a review. 584-589

Correspondence

• 
  Kyna McCullough Gooden, Xianying Pan, Hugh Kawabata, Jean-Marie Heim:
  Correspondence: Use of an algorithm for identifying hidden drug-drug interactions in adverse event reports. 590
• 
  Nicholas P. Tatonetti, Joshua C. Denny, Russ B. Altman:
  Correspondence: Response to 'Use of an algorithm for identifying hidden drug-drug interactions in adverse event reports' by Gooden et al. 591

Messages from AMIA

• 
  Kevin M. Fickenscher:
  President's column: interoperability - the 30% solution: from dialog and rhetoric to reality. 593-594

Volume 20, Number 4, July 2013

Highlights

• 
  Atul J. Butte, Lucila Ohno-Machado:
  Making it personal: translational bioinformatics. 595-596

Focus on translational bioinformatics

• 
  Simon Papillon-Cavanagh, Nicolas De Jay, Nehme Hachem, Catharina Olsen, Gianluca Bontempi, Hugo J. W. L. Aerts, John Quackenbush, Benjamin Haibe-Kains:
  Research and applications: Comparison and validation of genomic predictors for anticancer drug sensitivity. 597-602
• 
  Ryan J. Urbanowicz, Angeline S. Andrew, Margaret R. Karagas, Jason H. Moore:
  Research and applications: Role of genetic heterogeneity and epistasis in bladder cancer susceptibility and outcome: a learning classifier system approach. 603-612
• 
  Juhyeon Kim, Hyunjung Shin:
  Research and applications: Breast cancer survivability prediction using labeled, unlabeled, and pseudo-labeled patient data. 613-618
• 
  Younghee Lee, Haiquan Li, Jianrong Li, Ellen Rebman, Ikbel Achour, Kelly Regan, Eric R. Gamazon, James L. Chen, Xinan Holly Yang, Nancy J. Cox, Yves A. Lussier:
  Research and applications: Network models of genome-wide association studies uncover the topological centrality of protein interactions in complex diseases. 619-629
• 
  Ting Hu, Yuanzhu Peter Chen, Jeff Kiralis, Ryan L. Collins, Christian Wejse, Giorgio Sirugo, Scott M. Williams, Jason H. Moore:
  Research and applications: An information-gain approach to detecting three-way epistatic interactions in genetic association studies. 630-636
• 
  Je-Gun Joung, Do Kyoon Kim, Kyung-Hwa Kim, Ju Han Kim:
  Research and applications: Extracting coordinated patterns of DNA methylation and gene expression in ovarian cancer. 637-642
• 
  Zhe Zhang, Shawn Witham, Marharita Petukh, Gautier Moroy, Maria A. Miteva, Yoshihiko Ikeguchi, Emil Alexov:
  Research and applications: A rational free energy-based approach to understanding and targeting disease-causing missense mutations. 643-651
• 
  Laura K. Wiley, Anushi Shah, Hua Xu, William S. Bush:
  Research and applications: ICD-9 tobacco use codes are effective identifiers of smoking status. 652-658
• 
  Zhenshu Wen, Zhi-Ping Liu, Zhengrong Liu, Yan Zhang, Luonan Chen:
  Research and applications: An integrated approach to identify causal network modules of complex diseases with application to colorectal cancer. 659-667
• 
  Vivekanand Sharma, Indra Neil Sarkar:
  Research and applications: Leveraging biodiversity knowledge for potential phyto-therapeutic applications. 668-679
• 
  Chao Wang, Thierry Pécot, Debra L. Zynger, Raghu Machiraju, Charles L. Shapiro, Kun Huang:
  Research and applications: Identifying survival associated morphological features of triple negative breast cancer using multiple datasets. 680-687
• 
  Subramani Mani, Yukun Chen, Xia Li, Lori R. Arlinghaus, A. Bapsi Chakravarthy, Vandana G. Abramson, Sandeep R. Bhave, Mia A. Levy, Hua Xu, Thomas E. Yankeelov:
  Research and applications: Machine learning for predicting the response of breast cancer to neoadjuvant chemotherapy. 688-695
• 
  Jeremy L. Warner, Gil Alterovitz, Kelly Bodio, Robin M. Joyce:
  Brief communication: External phenome analysis enables a rational federated query strategy to detect changing rates of treatment-related complications associated with multiple myeloma. 696-699

Focus on human factors and system utilization

• 
  Madeline B. Deutsch, Jamison Green, JoAnne Keatley, Gal Mayer, Jennifer Hastings, Alexandra M. Hall:
  Perspective: Electronic medical records and the transgender patient: recommendations from the World Professional Association for Transgender Health EMR Working Group. 700-703
• 
  Jingquan Li:
  Perspective: Privacy policies for health social networking sites. 704-707
• 
  Andrew D. Boyd, Jianrong John Li, Mike D. Burton, Michael Jonen, Vincent Gardeux, Ikbel Achour, Roger Q. Luo, Ilir Zenku, Neil Bahroos, Stephen B. Brown, Terry L. Vanden Hoek, Yves A. Lussier:
  Research and applications: The discriminatory cost of ICD-10-CM transition between clinical specialties: metrics, case study, and mitigating tools. 708-717
• 
  Peter J. Embí, Charlene R. Weir, Efthimis N. Efthimiadis, Stephen M. Thielke, Ashley N. Hedeen, Kenric W. Hammond:
  Research and applications: Computerized provider documentation: findings and implications of a multisite study of clinicians and administrators. 718-726
• 
  Hardeep Singh, Christiane Spitzmueller, Nancy J. Petersen, Mona K. Sawhney, Michael W. Smith, Daniel R. Murphy, Donna Espadas, Archana Laxmisan, Dean F. Sittig:
  Research and applications: Primary care practitioners' views on test result management in EHR-enabled health systems: a national survey. 727-735
• 
  Ellen J. Bass, Justin Michael DeVoge, Linda A. Waggoner-Fountain, Stephen M. Borowitz:
  Research and applications: Resident physicians as human information systems: sources yet seekers. 736-742
• 
  Julia Driessen, Marco Cioffi, Noor Alide, Zach Landis-Lewis, Gervase Gamadzi, Oliver Jintha Gadabu, Gerald P. Douglas:
  Research and applications: Modeling return on investment for an electronic medical record system in Lilongwe, Malawi. 743-748
• 
  Kavishwar B. Wagholikar, Kathy L. MacLaughlin, Thomas M. Kastner, Petra M. Casey, Michael R. Henry, Robert A. Greenes, Hongfang Liu, Rajeev Chaudhry:
  Research and applications: Formative evaluation of the accuracy of a clinical decision support system for cervical cancer screening. 749-757
• 
  Tiffany C. Veinot, Terrance R. Campbell, Daniel J. Kruger, Alison Grodzinski:
  Research and applications: A question of trust: user-centered design requirements for an informatics intervention to promote the sexual health of African-American youth. 758-765
• 
  Robert C. Wu, Vivian Lo, Dante Morra, Brian M. Wong, Robert Sargeant, Ken Locke, Rodrigo Cavalcanti, Sherman D. Quan, Peter G. Rossos, Kim Tran, Mark Cheung:
  Research and applications: The intended and unintended consequences of communication systems on general internal medicine inpatient care delivery: a prospective observational case study of five teaching hospitals. 766-777
• 
  Gyemin Lee, Hitinder S. Gurm, Zeeshan Syed:
  Research and applications: Predicting complications of percutaneous coronary intervention using a novel support vector method. 778-786
• 
  Amanda A. Holup, Debra Dobbs, Hongdao Meng, Kathryn Hyer:
  Brief communication: Facility characteristics associated with the use of electronic health records in residential care facilities. 787-791
• 
  Jesdeep Bassi, Francis Y. Lau:
  Review: Measuring value for money: a scoping review on economic evaluation of health information systems. 792-801

Messages from AMIA

• 
  Kevin M. Fickenscher:
  President's column: population health - the ultimate application of informatics! 803-804

Volume 20, Number 5, September 2013

Highlights

• 
  Lucila Ohno-Machado, Prakash M. Nadkarni, Kevin B. Johnson:
  Natural language processing: algorithms and tools to extract computable information from EHRs and from the biomedical literature. 805

Reviews

• 
  Weiyi Sun, Anna Rumshisky, Özlem Uzuner:
  Evaluating temporal relations in clinical text: 2012 i2b2 Challenge. 806-813
• 
  Weiyi Sun, Anna Rumshisky, Özlem Uzuner:
  Temporal reasoning over clinical text: the state of the art. 814-819

Research and applications

• 
  Cyril Grouin, Natalia Grabar, Thierry Hamon, Sophie Rosset, Xavier Tannier, Pierre Zweigenbaum:
  Eventual situations for timeline extraction from clinical reports. 820-827
• 
  Buzhou Tang, Yonghui Wu, Min Jiang, Yukun Chen, Joshua C. Denny, Hua Xu:
  A hybrid system for temporal information extraction from clinical text. 828-835
• 
  Sunghwan Sohn, Kavishwar B. Wagholikar, Dingcheng Li, Siddhartha Jonnalagadda, Cui Tao, Ravikumar Komandur Elayavilli, Hongfang Liu:
  Comprehensive temporal information detection from clinical text: medical events, time, and TLINK identification. 836-842
• 
  Colin Cherry, Xiaodan Zhu, Joel D. Martin, Berry de Bruijn:
  À la Recherche du Temps Perdu: extracting temporal relations from medical text in the 2012 i2b2 NLP challenge. 843-848
• 
  Yan Xu, Yining Wang, Tianren Liu, Junichi Tsujii, Eric I-Chao Chang:
  An end-to-end system to identify temporal relation in discharge summaries: 2012 i2b2 challenge. 849-858
• 
  Aleksandar Kovacevic, Azad Dehghan, Michele Filannino, John A. Keane, Goran Nenadic:
  Combining rules and machine learning for extraction of temporal expressions and events from clinical narratives. 859-866
• 
  Kirk Roberts, Bryan Rink, Sanda M. Harabagiu:
  A flexible framework for recognizing events, temporal expressions, and temporal relations in clinical text. 867-875
• 
  Ning Kang, Bharat Singh, Zubair Afzal, Erik M. van Mulligen, Jan A. Kors:
  Using rule-based natural language processing to improve disease normalization in biomedical text. 876-881
• 
  Vijay Garla, Cynthia Brandt:
  Knowledge-based biomedical word sense disambiguation: an evaluation and application to clinical document classification. 882-886
• 
  Adam Wright, Allison B. McCoy, Stanislav Henkin, Abhivyakti Kale, Dean F. Sittig:
  Use of a support vector machine for categorizing free-text notes: assessment of accuracy across two institutions. 887-890
• 
  Ping Chen, David Hinote, Guoqing Chen:
  A rule based solution to co-reference resolution in clinical text. 891-897
• 
  Norris H. Heintzelman, Robert J. Taylor, Lone Simonsen, Roger Lustig, Doug Anderko, Jennifer A. Haythornthwaite, Lois C. Childs, George Steven Bova:
  Longitudinal analysis of pain in patients with metastatic prostate cancer using natural language processing of medical record text. 898-905
• 
  James A. McCart, Donald J. Berndt, Jay Jarman, Dezon Finch, Stephen Luther:
  Finding falls in ambulatory care clinical documents using statistical text mining. 906-914
• 
  Qi Li, Haijun Zhai, Louise Deléger, Todd Lingren, Megan Kaiser, Laura Stoutenborough, Imre Solti:
  A sequence labeling approach to link medications and their attributes in clinical notes and clinical trial announcements for information extraction. 915-921
• 
  Daniel Albright, Arrick Lanfranchi, Anwen Fredriksen, William F. Styler IV, Colin Warner, Jena D. Hwang, Jinho D. Choi, Dmitriy Dligach, Rodney D. Nielsen, James H. Martin, Wayne H. Ward, Martha Palmer, Guergana K. Savova:
  Towards comprehensive syntactic and semantic annotations of the clinical narrative. 922-930
• 
  Jeffrey P. Ferraro, Hal Daumé III, Scott L. DuVall, Wendy Webber Chapman, Henk Harkema, Peter J. Haug:
  Improving performance of natural language processing part-of-speech tagging on clinical narratives through domain adaptation. 931-939
• 
  Pierre-Yves Vandenbussche, Sylvie Cormont, Christophe André, Christel Daniel, Jean Delahousse, Jean Charlet, Eric Lepage:
  Implementation and management of a biomedical observation dictionary in a large healthcare information system. 940-946
• 
  Robert Eriksson, Peter Bjødstrup Jensen, Sune Frankild, Lars Juhl Jensen, Søren Brunak:
  Dictionary construction and identification of possible adverse drug events in Danish clinical narrative text. 947-953
• 
  Wei-Qi Wei, Robert M. Cronin, Hua Xu, Thomas A. Lasko, Lisa Bastarache, Joshua C. Denny:
  Development and evaluation of an ensemble resource linking medications to their indications. 954-961
• 
  Richard H. Epstein, Paul St. Jacques, Michael Stockin, Brian Rothman, Jesse M. Ehrenfeld, Joshua C. Denny:
  Automated identification of drug and food allergies entered using non-standard terminology. 962-968
• 
  Foster R. Goss, Li Zhou, Joseph M. Plasek, Carol A. Broverman, George A. Robinson, Blackford Middleton, Roberto A. Rocha:
  Evaluating standard terminologies for encoding allergy information. 969-979
• 
  Kevin E. K. Chai, Stephen Anthony, Enrico W. Coiera, Farah Magrabi:
  Using statistical text classification to identify health information technology incidents. 980-985
• 
  Jean-François Ethier, Olivier Dameron, Vasa Curcin, Mark M. McGilchrist, Robert A. Verheij, Theodoros N. Arvanitis, Adel Taweel, Brendan Delaney, Anita Burgun:
  A unified structural/terminological interoperability framework based on LexEVS: application to TRANSFoRm. 986-994
• 
  Siddhartha Jonnalagadda, Guilherme Del Fiol, Richard Medlin, Charlene R. Weir, Marcelo Fiszman, Javed Mostafa, Hongfang Liu:
  Automatically extracting sentences from Medline citations to support clinicians' information needs. 995-1000
• 
  Yukun Chen, Hongxin Cao, Qiaozhu Mei, Kai Zheng, Hua Xu:
  Applying active learning to supervised word sense disambiguation in MEDLINE. 1001-1006

Messages from AMIA

• 
  Kevin M. Fickenscher:
  President's column: operational informatics - expanding the scope of our discipline. 1007-1008

Volume 20, Number 6, November 2013

Highlights

• 
  Lucila Ohno-Machado:
  Data science and informatics: when it comes to biomedical data, is there a real distinction? 1009

Editorial

• 
  William Hsu, Mia K. Markey, May D. Wang:
  Biomedical imaging informatics in the era of precision medicine: progress, challenges, and opportunities. 1010-1013

Focus on imaging informatics

• 
  Mariano Crespo Azcárate, Jacinto Mata Vázquez, Manuel J. Maña López:
  Research and applications: Improving image retrieval effectiveness via query expansion using MeSH hierarchical structure. 1014-1020
• 
  Jiang Liu, Zhuo Zhang, Damon Wing Kee Wong, Yanwu Xu, Fengshou Yin, Jun Cheng, Ngan Meng Tan, Chee Keong Kwoh, Dong Xu, Yih Chung Tham, Tin Aung, Tien Yin Wong:
  Research and applications: Automatic glaucoma diagnosis through medical imaging informatics. 1021-1027
• 
  Corey W. Arnold, Mary McNamara, Suzie El-Saden, Shawn Chen, Ricky K. Taira, Alex A. T. Bui:
  Research and applications: Imaging informatics for consumer health: towards a radiology patient portal. 1028-1036
• 
  Xiaofeng Yang, Baowei Fei:
  Research and applications: Multiscale segmentation of the skull in MR images for MRI-based attenuation correction of combined MR/PET. 1037-1045
• 
  Pierrick Bourgeat, Vincent Doré, Victor Villemagne, Christopher Rowe, Olivier Salvado, Jurgen Fripp:
  Research and applications: MilxXplore: a web-based system to explore large imaging datasets. 1046-1052
• 
  Alex A. T. Bui, William Hsu, Corey W. Arnold, Suzie El-Saden, Denise R. Aberle, Ricky K. Taira:
  Perspective: Imaging-based observational databases for clinical problem solving: the role of informatics. 1053-1058
• 
  Daniel I. Golden, Jafi A. Lipson, Melinda L. Telli, James M. Ford, Daniel L. Rubin:
  Research and applications: Dynamic contrast-enhanced MRI-based biomarkers of therapeutic response in triple-negative breast cancer. 1059-1066
• 
  Georgia D. Tourassi, Sophie Voisin, Vincent C. Paquit, Elizabeth A. Krupinski:
  Research and applications: Investigating the link between radiologists' gaze, diagnostic decision, and image content. 1067-1075
• 
  Yang Chen, Xiaofeng Ren, Guo-Qiang Zhang, Rong Xu:
  Research and applications: Ontology-guided organ detection to retrieve web images of disease manifestation: towards the construction of a consumer-based health image library. 1076-1081
• 
  Ales Neubert, Jurgen Fripp, Craig Engstrom, Duncan Walker, Marc-André Weber, Raphael Schwarz, Stuart Crozier:
  Research and applications: Three-dimensional morphological and signal intensity features for detection of intervertebral disc degeneration from magnetic resonance images. 1082-1090
• 
  David A. Gutman, Jake Cobb, Dhananjaya Somanna, Yuna Park, Fusheng Wang, Tahsin M. Kurç, Joel H. Saltz, Daniel J. Brat, Lee A. D. Cooper:
  Research and applications: Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data. 1091-1098
• 
  Sonal Kothari, John H. Phan, Todd H. Stokes, May D. Wang:
  Review: Pathology imaging informatics for quantitative analysis of whole-slide images. 1099-1108

Focus on patient care

• 
  Isabelle Vedel, Saeed Akhlaghpour, Isaac Vaghefi, Howard Bergman, Liette Lapointe:
  Review: Health information technologies in geriatrics and gerontology: a mixed systematic review. 1109-1119
• 
  Diana Lynn MacLean, Jeffrey Heer:
  Research and applications: Identifying medical terms in patient-authored text: a crowdsourcing-based approach. 1120-1127
• 
  Courtney R. Lyles, Urmimala Sarkar, James D. Ralston, Nancy E. Adler, Dean Schillinger, Howard H. Moffet, Elbert S. Huang, Andrew J. Karter:
  Brief communication: Patient-provider communication and trust in relation to use of an online patient portal among diabetes patients: The Diabetes and Aging Study. 1128-1131
• 
  Timo Stübig, Eduardo M. Suero, Christian Zeckey, William Min, Laura Janzen, Musa Citak, Christian Krettek, Tobias Hüfner, Ralph Gaulke:
  Research and applications: Improvement in the workflow efficiency of treating non-emergency outpatients by using a WLAN-based real-time location system in a level I trauma center. 1132-1136
• 
  Stephen E. Ross, Tiffany A. Radcliff, William G. LeBlanc, L. Miriam Dickinson, Anne M. Libby, Donald E. Nease Jr.:
  Research and applications: Effects of health information exchange adoption on ambulatory testing rates. 1137-1142
• 
  Frederick North, Sarah J. Crane, Robert J. Stroebel, Stephen S. Cha, Eric S. Edell, Sidna M. Tulledge-Scheitel:
  Research and applications: Patient-generated secure messages and eVisits on a patient portal: are patients at risk? 1143-1149
• 
  Johanna I. Westbrook, Ling Li, Andrew Georgiou, Richard Paoloni, John Cullen:
  Research and applications: Impact of an electronic medication management system on hospital doctors' and nurses' work: a controlled pre-post, time and motion study. 1150-1158
• 
  Johanna I. Westbrook, Melissa T. Baysari, Ling Li, Rosemary Burke, Katrina L. Richardson, Richard O. Day:
  Research and applications: The safety of electronic prescribing: manifestations, mechanisms, and rates of system-related errors associated with two commercial systems in hospitals. 1159-1167
• 
  Jungwei Fan, Elly W. Yang, Min Jiang, Rashmi Prasad, Richard M. Loomis, Daniel Zisook, Joshua C. Denny, Hua Xu, Yang Huang:
  Research and applications: Syntactic parsing of clinical text: guideline and corpus development with handling ill-formed sentences. 1168-1177

Messages from AMIA

• 
  Kevin M. Fickenscher:
  President's column: the community imperative - Share to Care and Cure. 1178