Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Pharmacogenomics: Identification of New Drug Targets01:29

Pharmacogenomics: Identification of New Drug Targets

129
Advances in genomics have profoundly influenced drug discovery by increasing both the speed and accuracy of pharmaceutical development. Pharmacogenomics, which examines how genetic variation influences drug response, facilitates the identification of novel therapeutic targets and enables patient stratification for personalized treatment. These strategies contribute to improved drug efficacy, minimized adverse effects, and more efficient clinical trial design.Mapping genetic differences...
129
Biopharmaceutics and Pharmacokinetics: Overview01:28

Biopharmaceutics and Pharmacokinetics: Overview

4.7K
Understanding drugs, drug products, and their performance in pharmaceutical science is pivotal. Drugs, whether simple molecules or complex compounds, are designed to interact with the body's biological systems to diagnose, treat, or prevent diseases. Drug products include various delivery systems such as tablets, capsules, injections, and inhalers. The performance of these drug products is gauged by their ability to deliver the active ingredient to the desired site of action at the...
4.7K
Pharmacogenetics and Pharmacogenomics: Overview01:29

Pharmacogenetics and Pharmacogenomics: Overview

263
Pharmacogenetics and pharmacogenomics examine how genetic factors influence an individual's response to drugs. While pharmacogenetics focuses on the impact of specific genetic variants on drug effects, pharmacogenomics takes a broader approach, studying how genetic variation across populations contributes to differences in drug responses. These fields aim to explain why individuals may experience varying levels of efficacy or adverse reactions to the same medication.Variability in drug...
263
Drug Discovery: Overview01:26

Drug Discovery: Overview

10.4K
Drug discovery is a multifaceted process involving extensive screening, testing, and optimization of lead compounds to identify potential new drugs for therapeutic use. It combines several approaches, including screening large numbers of natural products, chemical modification of known active molecules, identification of new drug targets, and rational design based on biological mechanisms and drug-receptor structure. These approaches are carried out in both academic research laboratories and...
10.4K
Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches01:23

Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches

631
Biopharmaceutical studies constitute a vital field aiming to enhance drug delivery methods and refine therapeutic approaches, drawing upon diverse interdisciplinary knowledge. In research methodologies, the choice between controlled and non-controlled studies significantly influences the study's reliability and accuracy.
Non-controlled studies, commonly employed for initial exploration, lack a control group, rendering them susceptible to biases and external influences. In contrast,...
631
Pharmacogenetic Phenotypes: Alterations in Pharmacokinetics, Drug Targets and Biologic Milieu01:29

Pharmacogenetic Phenotypes: Alterations in Pharmacokinetics, Drug Targets and Biologic Milieu

160
Genetic variations significantly influence drug response through pharmacokinetics, receptor interactions, and biologic milieu modifications. Pharmacokinetic alterations impact drug metabolism and clearance, affecting efficacy and toxicity. Variants in drug-metabolizing enzymes, such as CYP2C9 and CYP2C19, alter drug activation and elimination. For example, CYP2C9 loss-of-function variants require lower warfarin doses to prevent excessive bleeding, while CYP2C19 variants reduce clopidogrel...
160

You might also read

Related Articles

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

Sort by
Same author

Automatic uncovering of patient primary concerns in portal messages using a fusion framework of pretrained language models.

Journal of the American Medical Informatics Association : JAMIA·2024
Same author

Increased Incidence of Vestibular Disorders in Patients With SARS-CoV-2.

Otology & neurotology open·2024
Same author

Potassium iodide enhances the killing effect of methylene blue mediated photodynamic therapy against F. monophora.

Photodiagnosis and photodynamic therapy·2024
Same author

Successful management of chromoblastomycosis utilizing conventional antifungal agents and imiquimod therapy.

Annals of clinical microbiology and antimicrobials·2024
Same author

Extractive Clinical Question-Answering With Multianswer and Multifocus Questions: Data Set Development and Evaluation Study.

JMIR AI·2024
Same author

Modulation of copper sites in porphyrin metal-organic frameworks for electrochemical ascorbic acid sensing.

Chemical communications (Cambridge, England)·2024

Related Experiment Video

Updated: May 5, 2026

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
07:35

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports

Published on: October 13, 2023

2.6K

Towards pathway curation through literature mining--a case study using PharmGKB.

K E Ravikumar1, Kavishwar B Wagholikar, Hongfang Liu

  • 1Department of Health Sciences Research, College of Medicine, Mayo clinic, Rochester, MN, 55905, USA. KomandurElayavilli.Ravikumar@mayo.edu.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|December 4, 2013
PubMed
Summary

This study introduces a rule-based system for extracting biological pathway information from scientific literature, aiding manual curation efforts. The system shows promise but highlights challenges in automated event extraction for pathway databases.

More Related Videos

Mass Spectrometry-Guided Genome Mining as a Tool to Uncover Novel Natural Products
11:13

Mass Spectrometry-Guided Genome Mining as a Tool to Uncover Novel Natural Products

Published on: March 12, 2020

10.5K
Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
03:08

Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization

Published on: October 3, 2025

1.1K

Related Experiment Videos

Last Updated: May 5, 2026

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
07:35

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports

Published on: October 13, 2023

2.6K
Mass Spectrometry-Guided Genome Mining as a Tool to Uncover Novel Natural Products
11:13

Mass Spectrometry-Guided Genome Mining as a Tool to Uncover Novel Natural Products

Published on: March 12, 2020

10.5K
Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
03:08

Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization

Published on: October 3, 2025

1.1K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Literature Mining

Background:

  • Biological pathway knowledge bases rely heavily on manual curation from scientific literature.
  • The volume of scientific literature makes manual curation challenging and time-consuming.
  • Existing text mining tools primarily assist in paper retrieval, not direct pathway information extraction.

Purpose of the Study:

  • To develop and evaluate a rule-based literature mining system for extracting biological pathway information directly from text.
  • To assess the system's performance in extracting entities and events related to pharmacokinetic (PK) and pharmacodynamic (PD) pathways.
  • To gain insights into the challenges of automated event extraction for pathway curation.

Main Methods:

  • Development of a rule-based system designed to identify and extract pathway-related information from text.
  • Evaluation of the system using curated PK and PD pathways from the PharmGKB database.
  • Performance assessment based on entity and event extraction accuracy against PubMed abstracts.

Main Results:

  • The system achieved an F-measure of 63.11% for entity extraction.
  • The system achieved an F-measure of 34.99% for event extraction.
  • The study identified key barriers hindering automated event extraction for pathway curation.

Conclusions:

  • Rule-based systems can extract pathway information from text, assisting manual curation.
  • Further improvements may be achieved by integrating statistical machine learning approaches.
  • Automated event extraction for pathway curation faces significant challenges that require further investigation.