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

Distance Corrections01:15

Distance Corrections

301
To achieve precise distance measurements, especially in surveying and construction, certain corrections must be applied to account for potential sources of error like the standardization errors, temperature variations, and slope adjustments.Standardization error emerges when measurement equipment undergoes changes, such as wear, repairs, or weather impacts. To address this, surveyors compare the equipment’s readings to a standard. This process identifies any deviation that might lead to...
301
Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches01:23

Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches

475
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,...
475
Power Factor Correction01:20

Power Factor Correction

557
The power transmission to a factory involves the transfer of apparent power, a combination of active and reactive power. The power factor measures how effectively electrical power is converted into useful work output. The ratio of the real power (KW) that does the work to the apparent power (KVA) supplied to the circuit.
557
NMR Spectrometers: Resolution and Error Correction01:14

NMR Spectrometers: Resolution and Error Correction

1.1K
When magnetic nuclei in a sample achieve resonance and undergo relaxation, the signal detected in NMR is an approximately exponential free induction decay. Fourier transform of an exponential decay yields a Lorentzian peak in the frequency domain. Lorentzian peaks in an NMR spectrum are defined by their amplitude, full width at half maximum, and position, where the peak width is governed by the spin-spin relaxation time alone. In real experiments, however, the applied magnetic field is rendered...
1.1K
Buffer Effectiveness02:19

Buffer Effectiveness

55.6K
Buffer solutions do not have an unlimited capacity to keep the pH relatively constant . Instead, the ability of a buffer solution to resist changes in pH relies on the presence of appreciable amounts of its conjugate weak acid-base pair. When enough strong acid or base is added to substantially lower the concentration of either member of the buffer pair, the buffering action within the solution is compromised.
The buffer capacity is the amount of acid or base that can be added to a given volume...
55.6K
Framing Effects03:26

Framing Effects

8.0K
Information is everywhere and its presentation—such as how and when items are presented—can impact our perceptions and decisions surrounding the info. This broad concept umbrellas framing effects—influences that occur due to the way information is framed in its appearance, whether it’s purely the order or the specific wording of a message. Let’s take a look at numerous ways in which two versions of something can objectively say the same thing, yet we respond in...
8.0K

You might also read

Related Articles

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

Sort by
Same author

Defining and characterizing the relevant state variables of the mammalian gut ecosystem.

Cell reports·2026
Same author

A data-driven modeling framework for mapping genotypes to synthetic microbial community functions.

Cell systems·2026
Same author

Microbiome-Directed Therapy for Fatigue in Quiescent Inflammatory Bowel Disease: A Randomized Placebo-Controlled Trial of Multistrain Probiotic Supplementation.

The American journal of gastroenterology·2026
Same author

A comparison of deep multiomics profiles across ethnicity, geography, and age.

Cell·2026
Same author

If you give a mouse a poopsicle: a novel fecal microbiota transplant method for exploring the role of the gut microbiome in stress-related outcomes in mice.

Frontiers in immunology·2026
Same author

Anxiety associated with dietary intake and gut microbiome features in a cross-sectional cohort of sub-clinically anxious young women.

medRxiv : the preprint server for health sciences·2026
Same journal

Another 10 years of PLOS Computational Biology: A data-driven reflection on trends in genomics research.

PLoS computational biology·2026
Same journal

Mobility data resolution needed to inform predictive models of spatial epidemic spread from mobile phone data.

PLoS computational biology·2026
Same journal

DeepMethylation: A deep learning framework for tissue-specific DNA methylation prediction and functional variant annotation.

PLoS computational biology·2026
Same journal

Redefining and estimating the early-phase reproduction ratio for epidemic outbreaks in spatially structured populations.

PLoS computational biology·2026
Same journal

Optimized phenotype definitions boost GWAS power.

PLoS computational biology·2026
Same journal

Detection, communication, and individual identification with deep audio embeddings: A case study with North Atlantic right whales.

PLoS computational biology·2026
See all related articles

Related Experiment Video

Updated: Feb 11, 2026

An In Vitro Batch-culture Model to Estimate the Effects of Interventional Regimens on Human Fecal Microbiota
07:15

An In Vitro Batch-culture Model to Estimate the Effects of Interventional Regimens on Human Fecal Microbiota

Published on: July 31, 2019

10.5K

Correcting for batch effects in case-control microbiome studies.

Sean M Gibbons1,2,3, Claire Duvallet1,2, Eric J Alm1,2,3

  • 1Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, United States of America.

Plos Computational Biology
|April 24, 2018
PubMed
Summary
This summary is machine-generated.

Batch effects in microbiome data can be corrected using a novel percentile-normalization method. This approach enhances sensitivity in case-control meta-analyses, offering a simple, non-parametric solution for microbiome sequencing datasets.

More Related Videos

A Gut-on-a-Chip Model to Study the Gut Microbiome-Nervous System Axis
09:18

A Gut-on-a-Chip Model to Study the Gut Microbiome-Nervous System Axis

Published on: July 28, 2023

3.6K
A Method to Define the Effects of Environmental Enrichment on Colon Microbiome Biodiversity in a Mouse Colon Tumor Model
08:14

A Method to Define the Effects of Environmental Enrichment on Colon Microbiome Biodiversity in a Mouse Colon Tumor Model

Published on: February 28, 2018

9.3K

Related Experiment Videos

Last Updated: Feb 11, 2026

An In Vitro Batch-culture Model to Estimate the Effects of Interventional Regimens on Human Fecal Microbiota
07:15

An In Vitro Batch-culture Model to Estimate the Effects of Interventional Regimens on Human Fecal Microbiota

Published on: July 31, 2019

10.5K
A Gut-on-a-Chip Model to Study the Gut Microbiome-Nervous System Axis
09:18

A Gut-on-a-Chip Model to Study the Gut Microbiome-Nervous System Axis

Published on: July 28, 2023

3.6K
A Method to Define the Effects of Environmental Enrichment on Colon Microbiome Biodiversity in a Mouse Colon Tumor Model
08:14

A Method to Define the Effects of Environmental Enrichment on Colon Microbiome Biodiversity in a Mouse Colon Tumor Model

Published on: February 28, 2018

9.3K

Area of Science:

  • Microbiology
  • Bioinformatics
  • Statistical Genetics

Background:

  • High-throughput data generation, including microbiome sequencing, is prone to batch effects from variations in experimental procedures.
  • Existing batch correction methods are not widely adopted for microbiome datasets.
  • Batch effects can confound results in microbiome case-control studies.

Purpose of the Study:

  • To compare various batch correction methods for microbiome sequencing data.
  • To introduce and evaluate a novel model-free percentile-normalization procedure.
  • To assess the performance of percentile-normalization against traditional meta-analysis and established batch correction models.

Main Methods:

  • A model-free percentile-normalization method was developed for microbiome case-control studies.
  • Case sample features (bacterial taxa) were converted to percentiles of control samples within each study.
  • The percentile-normalization method was compared to meta-analysis of p-values, limma, and ComBat.

Main Results:

  • Percentile-normalization effectively corrects batch effects in microbiome data.
  • The method demonstrated improved sensitivity in case-control meta-analyses.
  • It offers a simple, non-parametric alternative to existing approaches.

Conclusions:

  • Percentile-normalization is a robust and accessible technique for addressing batch effects in microbiome studies.
  • This approach enhances the reliability and power of microbiome meta-analyses.
  • It provides a valuable tool for researchers analyzing large-scale microbiome datasets.