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Modern Clinical Text Mining: A Guide and Review

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Electronic health records (EHRs) are becoming a vital source of data for healthcare quality improvement, research, and operations. However, much of th......

The Ethics of Consent in a Shifting Genomic Ecosystem

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

The collection and use of human genetic data raise important ethical questions about how to balance individual autonomy and privacy with the potential......

Single-Cell Analysis for Whole-Organism Datasets

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Cell atlases are essential companions to the genome as they elucidate how genes are used in a cell type-specific manner or how the usage of genes chan......

Illuminating the Virosphere Through Global Metagenomics

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Viruses are the most abundant biological entity on Earth, infect cellular organisms from all domains of life, and are central players in the global bi......

Ethical Machine Learning in Healthcare

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

The use of machine learning (ML) in healthcare raises numerous ethical concerns, especially as models can amplify existing health inequities. Here, we......

Satellite Monitoring for Air Quality and Health

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Data from satellite instruments provide estimates of gas and particle levels relevant to human health, even pollutants invisible to the human eye. How......

Neoantigen Controversies

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Next-generation sequencing technologies have revolutionized our ability to catalog the landscape of somatic mutations in tumor genomes. These mutation......

African Global Representation in Biomedical Sciences

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

African populations are diverse in their ethnicity, language, culture, and genetics. Although plagued by high disease burdens, until recently the cont......

Using Phecodes for Research with the Electronic Health Record: From PheWAS to PheRS

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Electronic health records (EHRs) are a rich source of data for researchers, but extracting meaningful information out of this highly complex data sour......

The 3D Genome Structure of Single Cells

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

The spatial organization of the genome in the cell nucleus is pivotal to cell function. However, how the 3D genome organization and its dynamics influ......

Metatranscriptomics for the Human Microbiome and Microbial Community Functional Profiling

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Shotgun metatranscriptomics (MTX) is an increasingly practical way to survey microbial community gene function and regulation at scale. This review be......

Mutational Signatures: From Methods to Mechanisms

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Mutations are the driving force of evolution, yet they underlie many diseases, in particular, cancer. They are thought to arise from a combination of ......

Probabilistic Machine Learning for Healthcare

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

Machine learning can be used to make sense of healthcare data. Probabilistic machine learning models help provide a complete picture of observed data ......

Artificial Intelligence in Action: Addressing the COVID-19 Pandemic with Natural Language Processing

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

The COVID-19 (coronavirus disease 2019) pandemic has had a significant impact on society, both because of the serious health effects of COVID-19 and b......

Integration of Multimodal Data for Deciphering Brain Disorders

期刊: ANNUAL REVIEW OF BIOMEDICAL DATA SCIENCE, VOL 4, 2021; 4 ()

The accumulation of vast amounts of multimodal data for the human brain, in both normal and disease conditions, has provided unprecedented opportuniti......

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