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...
Extraction: Advanced Methods00:56

Extraction: Advanced Methods

Metal ions can be separated from one another by complexation with organic ligands–the chelating agent– to form uncharged chelates. Here, the chelating agent must contain hydrophobic groups and behave as a weak acid, losing a proton to bind with the metal. Since most organic ligands used in this process are insoluble or undergo oxidation in the aqueous phase, the chelating agent is initially added to the organic phase and extracted into the aqueous phase. The metal-ligand complex is formed in...
Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...

You might also read

Related Articles

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

Sort by
Same author

Optimization of [<sup>18</sup>F]FBPA production for clinical translation through precursor development and manufacturing route evaluation.

EJNMMI radiopharmacy and chemistry·2026
Same author

Tandem triplicate A29L peptide elicits robust immune responses against monkeypox virus in mice.

Applied microbiology and biotechnology·2026
Same author

Gender Differences in the Trajectory and Predictors of Unmet Needs Among Young Stroke Survivors: A Longitudinal Secondary Analysis.

The Journal of cardiovascular nursing·2026
Same author

Clinical validity of Integrated Visual and Auditory Continuous Performance Test in identifying attention-deficit/hyperactivity disorder.

Child neuropsychology : a journal on normal and abnormal development in childhood and adolescence·2026
Same author

Comparative biological evaluation of [<sup>18</sup>F]fluciclovine, [<sup>18</sup>F]FBPA-Fr, and [<sup>18</sup>F]FET for boron neutron capture therapy: Preclinical validation and clinical feasibility.

Nuclear medicine and biology·2026
Same author

Functional interaction between advanced glycation end-products and IGFBP-3 contributes to renal pathology in aging-associated chronic kidney disease.

Tissue & cell·2026
Same journal

OpenIMC: an open-source platform for analyzing single-cell and spatial proteomics by imaging mass cytometry.

BMC bioinformatics·2026
Same journal

NAP: an open source pipeline for cross-domain microbiome profiling using Nanopore sequencing-derived amplicon data.

BMC bioinformatics·2026
Same journal

SurvGME: an R package for survival analysis with graphical and measurement error models.

BMC bioinformatics·2026
Same journal

SimMapNet: a Bayesian framework for gene regulatory network inference using gene ontology similarities as external hint.

BMC bioinformatics·2026
Same journal

Dual channel drug-drug interactions extraction based on cross attention.

BMC bioinformatics·2026
Same journal

FeSseqdb: a curated sequence-level database and interpretable machine learning framework for identifying iron-sulfur proteins.

BMC bioinformatics·2026
See all related articles

Related Experiment Video

Updated: Jun 29, 2026

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data
05:12

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data

Published on: January 16, 2019

easyExon--a Java-based GUI tool for processing and visualization of Affymetrix exon array data.

Ting-Yu Chang1, Yin-Yi Li, Chih-Hung Jen

  • 1Institute of Microbiology and Immunology, National Yang-Ming University, and Department of Education and Research, Taipei City Hospital, Taipei, Taiwan. d49402002@ym.edu.tw

BMC Bioinformatics
|October 15, 2008
PubMed
Summary
This summary is machine-generated.

easyExon is a new Java freeware for analyzing Affymetrix exon array data to identify alternative splicing (AS) events. This tool simplifies processing, filtration, and visualization, aiding genomic research.

More Related Videos

A Semi-high-throughput Imaging Method and Data Visualization Toolkit to Analyze C. elegans Embryonic Development
06:49

A Semi-high-throughput Imaging Method and Data Visualization Toolkit to Analyze C. elegans Embryonic Development

Published on: October 29, 2019

IR-TEx: An Open Source Data Integration Tool for Big Data Transcriptomics Designed for the Malaria Vector Anopheles gambiae
08:22

IR-TEx: An Open Source Data Integration Tool for Big Data Transcriptomics Designed for the Malaria Vector Anopheles gambiae

Published on: January 15, 2020

Related Experiment Videos

Last Updated: Jun 29, 2026

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data
05:12

ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data

Published on: January 16, 2019

A Semi-high-throughput Imaging Method and Data Visualization Toolkit to Analyze C. elegans Embryonic Development
06:49

A Semi-high-throughput Imaging Method and Data Visualization Toolkit to Analyze C. elegans Embryonic Development

Published on: October 29, 2019

IR-TEx: An Open Source Data Integration Tool for Big Data Transcriptomics Designed for the Malaria Vector Anopheles gambiae
08:22

IR-TEx: An Open Source Data Integration Tool for Big Data Transcriptomics Designed for the Malaria Vector Anopheles gambiae

Published on: January 15, 2020

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Alternative RNA splicing (AS) significantly expands proteome diversity, enabling species- or tissue-specific functions.
  • Splicing-sensitive microarrays, such as the Affymetrix GeneChip Exon 1.0 ST microarray (exon array), enable genomic-scale AS event studies.
  • A lack of user-friendly software hinders the application of exon array technology for AS analysis.

Purpose of the Study:

  • To introduce easyExon, a Java-based freeware tool for processing, filtering, and visualizing exon array data.
  • To provide a comprehensive analysis pipeline for detecting alternative splicing events using exon array data.
  • To facilitate the interpretation and visualization of selected exons and transcripts.

Main Methods:

  • Developed a Java-based freeware tool, easyExon, with an integrated analysis pipeline.
  • Implemented common probeset summarization methods and AS-specific filtration algorithms (MIDAS, PAC).
  • Included Gene Ontology (GO) term-based biological filtration and visualization modules.
  • Integrated easyExon with external programs like Integrate Genome Browser (IGB) and Affymetrix Power Tools (APT).

Main Results:

  • easyExon efficiently processes and analyzes Affymetrix exon array data.
  • The tool supports various summarization methods and AS detection algorithms.
  • Demonstrated the analysis pipeline using a public colon cancer dataset.

Conclusions:

  • easyExon provides an efficient solution for processing and analyzing Affymetrix exon array data.
  • The software's simplicity, flexibility, and brevity make it a valuable resource for identifying alternative splicing events in genomic research.