Search AMIA.org

DNA samples are often processed and sequenced in facilities external to the point of collection. These samples are routinely labeled with patient identifiers or pseudonyms, allowing for potential linkage to identity and private clinical information if intercepted during transmission. We present a cryptographic scheme to securely transmit externally generated sequence data which does not require any patient identifiers, public key infrastructure, or the transmission of passwords.

Implementation of Computerized Provider Order Entry (CPOE) has many potential advantages. Despite the potential benefits of CPOE, several attempts to implement CPOE systems have failed or met with high levels of user resistance. Implementation of CPOE can fail or meet high levels of user resistance for a variety of reasons, including lack of attention to users' needs and the significant workflow changes required by CPOE. User satisfaction is a critical [...]

To build an effective co-reference resolution system tailored to the biomedical domain.

It has been claimed that most research findings are false, and it is known that large-scale studies involving omics data are especially prone to errors in design, execution, and analysis. The situation is alarming because taxpayer dollars fund a substantial amount of biomedical research, and because the publication of a research article that is later determined to be flawed can erode the credibility of an entire field, resulting in a [...]

We describe an approach for modeling temporal relationships in a large scale association analysis of electronic health record data. The addition of temporal information can inform hypothesis generation and help to explain the relationships. We applied this approach on a dataset containing 41.2 million time-stamped International Classification of Diseases, Ninth Revision (ICD-9) codes from 1.6 million patients.

Many methods have been developed to identify disease genes and further module biomarkers of complex diseases based on gene expression data. It is generally difficult to distinguish whether the variations in gene expression are causative or merely the effect of a disease. The limitation of relying on gene expression data alone highlights the need to develop new approaches that can explore various data to reflect the casual relationship between network [...]

Data from electronic healthcare records (EHR) can be used to monitor drug safety, but in order to compare and pool data from different EHR databases, the extraction of potential adverse events must be harmonized. In this paper, we describe the procedure used for harmonizing the extraction from eight European EHR databases of five events of interest deemed to be important in pharmacovigilance: acute myocardial infarction (AMI); acute renal failure (ARF) [...]

To review the literature on clinical decision support (CDS) for genetically guided personalized medicine (GPM).

Current image sharing is carried out by manual transportation of CDs by patients or organization-coordinated sharing networks. The former places a significant burden on patients and providers. The latter faces challenges to patient privacy.