Using phecodes for research with the electronic health record: from PheWAS to PheRS

L Bastarache - Annual review of biomedical data science, 2021 - annualreviews.org
Electronic health records (EHRs) are a rich source of data for researchers, but extracting
meaningful information out of this highly complex data source is challenging. Phecodes …

UK phenomics platform for developing and validating electronic health record phenotypes: CALIBER

S Denaxas, A Gonzalez-Izquierdo… - Journal of the …, 2019 - academic.oup.com
Abstract Objective Electronic health records (EHRs) are a rich source of information on
human diseases, but the information is variably structured, fragmented, curated using …

Evaluating phecodes, clinical classification software, and ICD-9-CM codes for phenome-wide association studies in the electronic health record

WQ Wei, LA Bastarache, RJ Carroll, JE Marlo… - PloS one, 2017 - journals.plos.org
Objective To compare three groupings of Electronic Health Record (EHR) billing codes for
their ability to represent clinically meaningful phenotypes and to replicate known genetic …

Extracting research-quality phenotypes from electronic health records to support precision medicine

WQ Wei, JC Denny - Genome medicine, 2015 - Springer
The convergence of two rapidly developing technologies-high-throughput genotyping and
electronic health records (EHRs)-gives scientists an unprecedented opportunity to utilize …

Mining electronic health records: towards better research applications and clinical care

PB Jensen, LJ Jensen, S Brunak - Nature Reviews Genetics, 2012 - nature.com
Clinical data describing the phenotypes and treatment of patients represents an underused
data source that has much greater research potential than is currently realized. Mining of …

Systematic comparison of phenome-wide association study of electronic medical record data and genome-wide association study data

JC Denny, L Bastarache, MD Ritchie, RJ Carroll… - Nature …, 2013 - nature.com
Candidate gene and genome-wide association studies (GWAS) have identified genetic
variants that modulate risk for human disease; many of these associations require further …

Chapter 13: Mining electronic health records in the genomics era

JC Denny - PLoS computational biology, 2012 - journals.plos.org
The combination of improved genomic analysis methods, decreasing genotyping costs, and
increasing computing resources has led to an explosion of clinical genomic knowledge in …

Using electronic health records to generate phenotypes for research

SA Pendergrass, DC Crawford - Current protocols in human …, 2019 - Wiley Online Library
Electronic health records contain patient‐level data collected during and for clinical care.
Data within the electronic health record include diagnostic billing codes, procedure codes …

Phenome-wide association studies as a tool to advance precision medicine

JC Denny, L Bastarache… - Annual review of genomics …, 2016 - annualreviews.org
Beginning in the early 2000s, the accumulation of biospecimens linked to electronic health
records (EHRs) made possible genome-phenome studies (ie, comparative analyses of …

The electronic medical records and genomics (eMERGE) network: past, present, and future

O Gottesman, H Kuivaniemi, G Tromp, WA Faucett… - Genetics in …, 2013 - nature.com
Abstract The Electronic Medical Records and Genomics Network is a National Human
Genome Research Institute–funded consortium engaged in the development of methods …