Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Genetic Screens

Genetic Screens

Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which result in visible changes...

Bioavailability Study Design: Healthy Subjects Versus Patients

Bioavailability Study Design: Healthy Subjects Versus Patients

Bioavailability studies are essential for evaluating a drug's therapeutic efficacy and understanding its absorption patterns under various physiological conditions. Conducting such studies on target patient populations provides more relevant data by simulating real-world disease states. However, practical challenges often necessitate the use of young, healthy adult volunteers as study subjects.Patients may exhibit altered drug absorption patterns due to the effects of the disease itself,...

Study Design in Statistics

Study Design in Statistics

A study design is a set of techniques that allow a researcher to collect and analyze data from different variables defined for a specific research problem. Statistics is commonly for effective study design and more robust experiments,
Does aspirin reduce the risk of heart attacks? Is one brand of fertilizer more effective at growing roses than another? Is fatigue as dangerous to a driver as the influence of alcohol? Questions like these are answered using randomized experiments with proper...

Study Designs in Epidemiology

Study Designs in Epidemiology

Epidemiological study designs are fundamental tools for investigating the distribution, determinants, and control of health conditions in populations. They help researchers understand the relationships between exposures and outcomes, and they broadly fall into two categories: "observational" and "experimental" studies.
Observational studies are those where the researcher does not intervene but rather observes natural variations. They include cross-sectional, cohort, and case-control studies.

Bioavailability Study Design: Absolute Versus Relative Bioavailability

Bioavailability Study Design: Absolute Versus Relative Bioavailability

Bioavailability is a crucial pharmacokinetic parameter that quantifies the proportion of an administered drug that reaches the systemic circulation and is available for therapeutic action. Regulatory agencies mandate the assessment of bioavailability, typically measured as the area under the drug plasma concentration-versus-time curve (AUC), to ensure the efficacy and safety of pharmaceutical products. These evaluations are categorized as absolute and relative bioavailability studies.Absolute...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Preparation and characterization of visible-light-driven TiO2 photocatalyst Co-doped with nitrogen and erbium.

Journal of nanoscience and nanotechnology·2012

Same author

A novel sucrose phosphorylase from the metagenomes of sucrose-rich environment: isolation and characterization.

World journal of microbiology & biotechnology·2012

Same author

A metal-based inhibitor of tumor necrosis factor-α.

Angewandte Chemie (International ed. in English)·2012

Same author

[Effect of snail control of niclosamide by soil mixing and spraying methods in high dam of terrace].

Zhongguo xue xi chong bing fang zhi za zhi = Chinese journal of schistosomiasis control·2012

Same author

Activation of the CB2 receptor system reverses amyloid-induced memory deficiency.

Neurobiology of aging·2012

Same author

[Down-regulation of transcription factor PU.1 via abnormal epigenetic modification in chronic myeloid leukemia].

Zhonghua zhong liu za zhi [Chinese journal of oncology]·2012

Search research articles

Related Experiment Video

Updated: May 12, 2026

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

Published on: July 1, 2020

A system for extracting study design parameters from nutritional genomics abstracts.

Cassidy Kelly¹, Hui Yang

¹San Francisco State University, 1600 Holloway Ave. San Francisco, CA 94132, USA. {cassidyk,huiyang}@sfsu.edu

Journal of Integrative Bioinformatics

|April 5, 2013

Summary

This study introduces a novel natural language processing (NLP) system to extract study design parameters from biomedical abstracts. The system enhances data extraction for nutrigenomics research, achieving state-of-the-art results.

Related Experiment Videos

Last Updated: May 12, 2026

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

Published on: July 1, 2020

Area of Science:

Biomedical Informatics
Computational Linguistics
Nutritional Genomics

Background:

Extracting study design parameters (e.g., duration, subject count) from biomedical literature is crucial for understanding research.
Existing methods for study parameter extraction in natural language processing (NLP) have limitations in granularity and performance.
Nutrigenomics research requires detailed study characteristics to build comprehensive networks.

Purpose of the Study:

To develop and present a novel NLP system for extracting study design parameters from biomedical journal article abstracts.
To improve the granularity and accuracy of study parameter extraction compared to existing systems.
To serve as a foundational component for a larger system aimed at constructing nutrigenomics networks.

Main Methods:

The system employs manually designed rules, including regular expressions and sentence parse structures.
A pipelined algorithmic framework integrates various NLP tools and filters.
Extraction is performed at the sentence level within article abstracts.

Main Results:

The developed system achieves extraction at a finer level of granularity than comparable systems.
The system's performance surpasses the current state of the art in study design parameter extraction.
Successfully extracts key study characteristics like duration, number of subjects, and subject profiles.

Conclusions:

The novel NLP approach offers a significant advancement in extracting detailed study design parameters from biomedical abstracts.
This system provides a robust solution for enhancing data extraction in the nutritional genomics domain.
The improved extraction capabilities are vital for building sophisticated nutrigenomics networks and advancing research.