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

DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
Mass Analyzers: Overview01:13

Mass Analyzers: Overview

The mass analyzer is a crucial component of the mass spectrometer. In the ionization chamber, the vaporized sample is bombarded with a high-energy electron beam to generate a radical cation and further fragment into neutral molecules, radicals, and cations. A series of negatively charged accelerator plates accelerate the cations into the mass analyzer. The mass analyzer separates ions according to their mass-to-charge (m/z) ratios and then directs them to the detector. The common types of mass...
Mass Analyzers: Common Types01:19

Mass Analyzers: Common Types

The quadrupole mass analyzer consists of four cylindrical metal rods arranged in a diamond carrying a DC voltage and a radio-frequency AC voltage. The motion of ions through the quadrupole depends on the field strength, causing only ions of a certain m/z to resonate successfully and strike the detector at a given field strength. Though the transmission rate for these analyzers is high, the exact elemental composition of the sample is not determined because of low resolution; however, they are...
Data Reporting and Recording01:24

Data Reporting and Recording

Reporting and recording are crucial in data documentation. The timely, thorough, and accurate documentation of facts is essential when recording patient data. Failure to record findings during an assessment or interpretation of a problem will result in loss of information and make the patient document unreliable. The reader is left with general impressions if the information is not specific. A recording is documenting data of the individual's health information in a traceable, secure, and...
Performing a Simple Data Analysis using MS-Excel Function01:17

Performing a Simple Data Analysis using MS-Excel Function

Microsoft Excel offers a suite of functions and tools ideal for statistical analysis, making it accessible to students and researchers. This article outlines fundamental Excel functions pivotal for data analysis.
SUM: This function calculates the total sum of a range of values. It's the foundation for aggregating data, essential for determining overall trends and totals in datasets.
AVERAGE: It computes the mean value of a given set of numbers, providing a quick insight into the central...
Statistical Analysis: Overview01:11

Statistical Analysis: Overview

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...

You might also read

Related Articles

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

Sort by
Same author

Programmatic access to ICTV virus taxonomy through a public ontology API.

bioRxiv : the preprint server for biology·2026
Same author

BioStudies Database: A Platform for Life Sciences Study Data Dissemination.

Journal of molecular biology·2026
Same author

scDenorm: a denormalization tool for integrating single-cell transcriptomics data.

GigaScience·2026
Same author

Correction: Establishing standardized transthoracic echocardiography reference ranges for mouse models: insights into the impact of anesthesia, sex, and age.

Frontiers in cardiovascular medicine·2026
Same author

A general strategy for generating expert-guided, simplified views of ontologies.

Scientific data·2026
Same author

Establishing standardized transthoracic echocardiography reference ranges for mouse models: insights into the impact of anesthesia, sex, and age.

Frontiers in cardiovascular medicine·2026
Same journal

Protein Sequence Analysis Using the MPI Bioinformatics Toolkit.

Current protocols in bioinformatics·2020
Same journal

Exploring Manually Curated Annotations of Intrinsically Disordered Proteins with DisProt.

Current protocols in bioinformatics·2020
Same journal

Network Building with the Cytoscape BioGateway App Explained in Five Use Cases.

Current protocols in bioinformatics·2020
Same journal

Expanding the Perseus Software for Omics Data Analysis With Custom Plugins.

Current protocols in bioinformatics·2020
Same journal

Exploring Non-Coding RNAs in RNAcentral.

Current protocols in bioinformatics·2020
Same journal

How to Illuminate the Dark Proteome Using the Multi-omic OpenProt Resource.

Current protocols in bioinformatics·2020
See all related articles

Related Experiment Video

Updated: Jun 30, 2026

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress
05:22

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

Data storage and analysis in ArrayExpress and Expression Profiler.

Gabriella Rustici1, Misha Kapushesky1, Nikolay Kolesnikov1

  • 1European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom.

Current Protocols in Bioinformatics
|September 27, 2008
PubMed
Summary
This summary is machine-generated.

ArrayExpress provides a public archive for MIAME-compliant transcriptomics data. This database allows researchers to query and analyze gene expression profiles using various experimental attributes and integrated tools like Expression Profiler.

More Related Videos

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies
14:56

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Published on: May 6, 2022

The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics
13:02

The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics

Published on: October 5, 2016

Related Experiment Videos

Last Updated: Jun 30, 2026

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress
05:22

Analyzing Multifactorial RNA-Seq Experiments with DiCoExpress

Published on: July 29, 2022

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies
14:56

Sample Preparation to Bioinformatics Analysis of DNA Methylation: Association Strategy for Obesity and Related Trait Studies

Published on: May 6, 2022

The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics
13:02

The Terroir Concept Interpreted through Grape Berry Metabolomics and Transcriptomics

Published on: October 5, 2016

Area of Science:

  • Bioinformatics
  • Genomics
  • Transcriptomics

Background:

  • Publicly available transcriptomics data is crucial for biological research.
  • Standardized data formats ensure data usability and reproducibility.
  • Databases facilitate data sharing and collaborative research.

Purpose of the Study:

  • To describe the ArrayExpress database, a public resource for transcriptomics data.
  • To highlight the functionalities for data archiving, querying, and analysis.

Main Methods:

  • Archiving MIAME-compliant microarray and transcriptomics data.
  • Developing query interfaces based on experimental attributes and gene properties.
  • Integrating data analysis tools, including Expression Profiler and the R statistical package.

Main Results:

  • ArrayExpress comprises a public repository and a curated warehouse of gene expression profiles.
  • Users can query experiments by keywords, species, platform, or accession numbers.
  • Gene expression data can be visualized and analyzed using Expression Profiler with R integration.

Conclusions:

  • ArrayExpress serves as a valuable public resource for transcriptomics research.
  • The database facilitates data accessibility, exploration, and analysis.
  • Integrated analysis tools enhance the utility of archived gene expression data.