Chairman's column: health informatics and healthcare transformation--entering the post-EMR era.
Author(s): Middleton, Blackford
DOI: 10.1136/amiajnl-2014-003337
Author(s): Middleton, Blackford
DOI: 10.1136/amiajnl-2014-003337
The emergence of precision medicine allowed the incorporation of individual molecular data into patient care. Indeed, DNA sequencing predicts somatic mutations in individual patients. However, these genetic features overlook dynamic epigenetic and phenotypic response to therapy. Meanwhile, accurate personal transcriptome interpretation remains an unmet challenge. Further, N-of-1 (single-subject) efficacy trials are increasingly pursued, but are underpowered for molecular marker discovery.
Author(s): Gardeux, Vincent, Achour, Ikbel, Li, Jianrong, Maienschein-Cline, Mark, Li, Haiquan, Pesce, Lorenzo, Parinandi, Gurunadh, Bahroos, Neil, Winn, Robert, Foster, Ian, Garcia, Joe G N, Lussier, Yves A
DOI: 10.1136/amiajnl-2013-002519
To evaluate state-of-the-art unsupervised methods on the word sense disambiguation (WSD) task in the clinical domain. In particular, to compare graph-based approaches relying on a clinical knowledge base with bottom-up topic-modeling-based approaches. We investigate several enhancements to the topic-modeling techniques that use domain-specific knowledge sources.
Author(s): Chasin, Rachel, Rumshisky, Anna, Uzuner, Ozlem, Szolovits, Peter
DOI: 10.1136/amiajnl-2013-002133
Electronic health records (EHRs) must support primary care clinicians and patients, yet many clinicians remain dissatisfied with their system. This article presents a consensus statement about gaps in current EHR functionality and needed enhancements to support primary care. The Institute of Medicine primary care attributes were used to define needs and meaningful use (MU) objectives to define EHR functionality. Current objectives remain focused on disease rather than the whole person [...]
Author(s): Krist, Alex H, Beasley, John W, Crosson, Jesse C, Kibbe, David C, Klinkman, Michael S, Lehmann, Christoph U, Fox, Chester H, Mitchell, Jason M, Mold, James W, Pace, Wilson D, Peterson, Kevin A, Phillips, Robert L, Post, Robert, Puro, Jon, Raddock, Michael, Simkus, Ray, Waldren, Steven E
DOI: 10.1136/amiajnl-2013-002229
Pathology reports are rich in narrative statements that encode a complex web of relations among medical concepts. These relations are routinely used by doctors to reason on diagnoses, but often require hand-crafted rules or supervised learning to extract into prespecified forms for computational disease modeling. We aim to automatically capture relations from narrative text without supervision.
Author(s): Luo, Yuan, Sohani, Aliyah R, Hochberg, Ephraim P, Szolovits, Peter
DOI: 10.1136/amiajnl-2013-002443
To evaluate factors affecting performance of influenza detection, including accuracy of natural language processing (NLP), discriminative ability of Bayesian network (BN) classifiers, and feature selection.
Author(s): Ye, Ye, Tsui, Fuchiang Rich, Wagner, Michael, Espino, Jeremy U, Li, Qi
DOI: 10.1136/amiajnl-2013-001934
The outpatient clinical note documents the clinician's information collection, problem assessment, and patient management, yet there is currently no validated instrument to measure the quality of the electronic clinical note. This study evaluated the validity of the QNOTE instrument, which assesses 12 elements in the clinical note, for measuring the quality of clinical notes. It also compared its performance with a global instrument that assesses the clinical note as a [...]
Author(s): Burke, Harry B, Hoang, Albert, Becher, Dorothy, Fontelo, Paul, Liu, Fang, Stephens, Mark, Pangaro, Louis N, Sessums, Laura L, O'Malley, Patrick, Baxi, Nancy S, Bunt, Christopher W, Capaldi, Vincent F, Chen, Julie M, Cooper, Barbara A, Djuric, David A, Hodge, Joshua A, Kane, Shawn, Magee, Charles, Makary, Zizette R, Mallory, Renee M, Miller, Thomas, Saperstein, Adam, Servey, Jessica, Gimbel, Ronald W
DOI: 10.1136/amiajnl-2013-002321
Children are a vulnerable population in the operating room, and are particularly at risk of complications from unanticipated hemorrhage. The decision to prepare blood products prior to surgery varies depending on the personal experience of the clinician caring for the patient. We present the first application of a data visualization technique to study large datasets in the context of blood product transfusions at a tertiary pediatric hospital. The visual analytical [...]
Author(s): Gálvez, Jorge A, Ahumada, Luis, Simpao, Allan F, Lin, Elaina E, Bonafide, Christopher P, Choudhry, Dhruv, England, William R, Jawad, Abbas F, Friedman, David, Sesok-Pizzini, Debora A, Rehman, Mohamed A
DOI: 10.1136/amiajnl-2013-002241
Malfunctions or poor usability of devices measuring glucose or delivering insulin are reportable to the FDA. Manufacturers submit 99.9% of these reports. We test online social networks as a complementary source to traditional FDA reporting of device-related adverse events.
Author(s): Mandl, Kenneth D, McNabb, Marion, Marks, Norman, Weitzman, Elissa R, Kelemen, Skyler, Eggleston, Emma M, Quinn, Maryanne
DOI: 10.1136/amiajnl-2013-002127
Named entity recognition (NER) is one of the fundamental tasks in natural language processing. In the medical domain, there have been a number of studies on NER in English clinical notes; however, very limited NER research has been carried out on clinical notes written in Chinese. The goal of this study was to systematically investigate features and machine learning algorithms for NER in Chinese clinical text.
Author(s): Lei, Jianbo, Tang, Buzhou, Lu, Xueqin, Gao, Kaihua, Jiang, Min, Xu, Hua
DOI: 10.1136/amiajnl-2013-002381