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

One-Compartment Open Model: Wagner-Nelson and Loo Riegelman Method for ka Estimation01:24

One-Compartment Open Model: Wagner-Nelson and Loo Riegelman Method for ka Estimation

1.1K
This lesson introduces two critical methods in pharmacokinetics, the Wagner-Nelson and Loo-Riegelman methods, used for estimating the absorption rate constant (ka) for drugs administered via non-intravenous routes. The Wagner-Nelson method relates ka to the plasma concentration derived from the slope of a semilog percent unabsorbed time plot. However, it is limited to drugs with one-compartment kinetics and can be impacted by factors like gastrointestinal motility or enzymatic degradation.
On...
1.1K
Cluster Sampling Method01:20

Cluster Sampling Method

13.9K
Appropriate sampling methods ensure that samples are drawn without bias and accurately represent the population. Because measuring the entire population in a study is not practical, researchers use samples to represent the population of interest.
To choose a cluster sample, divide the population into clusters (groups) and then randomly select some of the clusters. All the members from these clusters are in the cluster sample. For example, if you randomly sample four departments from your...
13.9K
Introduction to R01:11

Introduction to R

4.0K
R is a powerful software environment for statistical computing and graphics. Originating as an implementation of the S language, developed at Bell Laboratories, R has evolved into a robust, open-source statistical software favored by statisticians and data scientists worldwide. Its comprehensive suite includes data manipulation, calculation, and graphical display capabilities, making it versatile for data analysis and visualization. Its programming language is at the core of R's...
4.0K
Stratified Sampling Method01:16

Stratified Sampling Method

14.4K
Sampling is a technique to select a portion (or subset) of the larger population and study that portion (the sample) to gain information about the population. The sampling method ensures that samples are drawn without bias and accurately represent the population. Because measuring the entire population in a study is not practical, researchers use samples to represent the population of interest.
To choose a stratified sample, divide the population into groups called strata and then take a...
14.4K
Statistical Analysis: Overview01:11

Statistical Analysis: Overview

14.0K
When we take repeated measurements on the same or replicated samples, we will observe inconsistencies in the magnitude. These inconsistencies are called errors. To categorize and characterize these results and their errors, the researcher can use statistical analysis to determine the quality of the measurements and/or suitability of the methods.
One of the most commonly used statistical quantifiers is the mean, which is the ratio between the sum of the numerical values of all results and the...
14.0K
Systematic Sampling Method01:17

Systematic Sampling Method

12.4K
Sampling is a technique to select a portion (or subset) of the larger population and study that portion (the sample) to gain information about the population. Data are the result of sampling from a population. The sampling method ensures that samples are drawn without bias and accurately represent the population. Because measuring the entire population in a study is not practical, researchers use samples to represent the population of interest.
Systematic sampling is one of the simplest methods...
12.4K

You might also read

Related Articles

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

Sort by
Same author

Endoscopic variceal ligation versus cyanoacrylate injection for acute variceal bleeding from the cardia to the lesser curvature.

Journal of the Chinese Medical Association : JCMA·2026
Same author

Genomic, Transcriptomic, and Regulomic Analyses Do Not Support Profound Autism as a Distinct Biological Category.

bioRxiv : the preprint server for biology·2026
Same author

Deploying a JupyterHub Server for Academic Research Using Netbooks as an Example.

Current protocols·2026
Same author

Temporal changes in gene regulation during human tissue repair.

Scientific reports·2026
Same author

Leveraging Artificial Intelligence in Allergy, Asthma, and Immunology With Environmental Exposures.

Allergy·2026
Same author

HHIP's dynamic role in epithelial wound healing reveals a potential mechanism of COPD susceptibility.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same journal

Delaying surgery beyond six weeks after systemic therapy reduces postoperative morbidity without evidence of impaired oncologic outcomes in colorectal liver metastases.

BMC cancer·2026
Same journal

Perioperative NLR/PLR dynamic phenotypes and prediction of postoperative recurrence in locally advanced gastric cancer: a retrospective cohort study.

BMC cancer·2026
Same journal

NT5E promotes colorectal cancer progression and correlates with PD-L1 expression: evidence from multi-omics analysis, clinical samples, and cellular functional assays.

BMC cancer·2026
Same journal

Optimized chemotherapy sequence for metastatic pancreatic ductal adenocarcinoma patients: FOLFIRINOX followed by Gemcitabine plus nab-paclitaxel.

BMC cancer·2026
Same journal

Exercise and nutritional prehabilitation in gastrointestinal cancer patients: prospective controlled trial assessing feasibility, safety and effects on quality of life.

BMC cancer·2026
Same journal

Immune-related adverse events with cancer clinical benefits: a systematic review and meta-analysis.

BMC cancer·2026
See all related articles

Related Experiment Video

Updated: Jan 5, 2026

Author Spotlight: Understanding Processing of Olfactory and Spatial Information by Brain with Real-Time Behavioral Analysis
06:21

Author Spotlight: Understanding Processing of Olfactory and Spatial Information by Brain with Real-Time Behavioral Analysis

Published on: September 20, 2024

1.4K

lionessR: single sample network inference in R.

Marieke L Kuijjer1, Ping-Han Hsieh2, John Quackenbush3,4,5

  • 1Centre for Molecular Medicine Norway (NCMM), Nordic EMBL Partnership, University of Oslo, Gaustadalléen 21, Oslo, 0318, Norway. marieke.kuijjer@ncmm.uio.no.

BMC Cancer
|October 27, 2019
PubMed
Summary
This summary is machine-generated.

The lionessR R package enables the creation of single-sample networks from population data, revealing individual biological variations. This tool aids in identifying differential network patterns for precision medicine applications, particularly in cancer research.

Keywords:
AlgorithmsBiological networksCo-expressionComputational biologyGene regulationNetwork analysisOsteosarcomaPrecision medicineSoftware tools

More Related Videos

Tracking Rats in Operant Conditioning Chambers Using a Versatile Homemade Video Camera and DeepLabCut
08:32

Tracking Rats in Operant Conditioning Chambers Using a Versatile Homemade Video Camera and DeepLabCut

Published on: June 15, 2020

13.2K
Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation
07:57

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Published on: August 21, 2019

9.0K

Related Experiment Videos

Last Updated: Jan 5, 2026

Author Spotlight: Understanding Processing of Olfactory and Spatial Information by Brain with Real-Time Behavioral Analysis
06:21

Author Spotlight: Understanding Processing of Olfactory and Spatial Information by Brain with Real-Time Behavioral Analysis

Published on: September 20, 2024

1.4K
Tracking Rats in Operant Conditioning Chambers Using a Versatile Homemade Video Camera and DeepLabCut
08:32

Tracking Rats in Operant Conditioning Chambers Using a Versatile Homemade Video Camera and DeepLabCut

Published on: June 15, 2020

13.2K
Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation
07:57

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation

Published on: August 21, 2019

9.0K

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Systems Biology

Background:

  • Network inference algorithms analyze population data to infer biological associations, averaging individual variations.
  • LIONESS (Linear Interpolation to Obtain Network Estimates for Single Samples) extracts networks for individual samples, capturing population heterogeneity.
  • LIONESS is a generalizable method applicable to various network inference algorithms.

Purpose of the Study:

  • Introduce lionessR, an R implementation of the LIONESS method.
  • Provide a user-friendly tool for modeling single-sample networks.
  • Demonstrate the application of lionessR for identifying differential network patterns.

Main Methods:

  • Implemented LIONESS in R as the lionessR package.
  • Designed lionessR to work with any R network inference method outputting a weighted adjacency matrix.
  • Applied lionessR to a bone cancer dataset using correlated gene expression.

Main Results:

  • Successfully modeled single-sample networks using lionessR.
  • Identified differential correlation patterns between patient groups in the bone cancer dataset.
  • Demonstrated the utility of lionessR in uncovering network heterogeneity.

Conclusions:

  • Developed lionessR, an open-source R package for single-sample network modeling.
  • Highlighted potential precision medicine applications in cancer using lionessR.
  • Made lionessR freely available with a descriptive vignette.