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 Experiment Videos

Comparison of different microarray data analysis programs and description of a database for microarray data

Lizhe Xu1, Grace A Maresh, Jason Giardina

  • 1The Research Institute for Children, Children's Hospital, New Orleans, Louisiana 70118, USA. lxu@chnola-research.org

DNA and Cell Biology
|December 9, 2004
PubMed
Summary

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Genome sequencing reveals a highly divergent Biotype II African swine fever virus in Nigeria.

Research square·2026
Same author

CRLF1 Drives Prostate Cancer Progression via COMP-Mediated Activation of the FAK/PI3K/AKT Signaling Pathway.

Cancers·2026
Same author

ADAMTS2 drives prostate cancer progression by activating FAK/PI3K/AKT signaling and suppressing ferroptosis via COL1A1.

Frontiers in oncology·2026
Same author

Anti-HIV Immunotoxin and Antibody-Drug Conjugate Display Both Common and Distinct Effects in Killing Target Cells.

bioRxiv : the preprint server for biology·2026
Same author

CSDE1 Drives Glycolysis and the Progression of Prostate Cancer Through RAC1-Dependent RAS/MAPK Activation.

FASEB journal : official publication of the Federation of American Societies for Experimental Biology·2026
Same author

Comparative In Vitro Evaluation of Anti-HIV Immunotoxin, Antibody-Drug Conjugate, and Radioimmunoconjugate Targeted by the Same Antibody.

Antibodies (Basel, Switzerland)·2026

Analyzing gene expression data from HIV infection studies presents challenges. A personal database using Unigene information can improve the accuracy and consistency of microarray analysis results.

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • Gene expression studies using microarrays face significant data analysis and management hurdles.
  • Accurate interpretation of gene expression changes is crucial for understanding diseases like HIV infection.

Purpose of the Study:

  • To compare different data analysis methods for microarray studies.
  • To demonstrate the effectiveness of a personal microarray database for managing and analyzing gene expression data.
  • To assess the impact of various analytical parameters on study outcomes.

Main Methods:

  • Gene expression profiling of HIV-infected cell lines using Affymetrix U-133 A and B chips.
  • Comparative analysis of data using Affymetrix Microarray Suite, Silicon Genetics GeneSpring, and dChip.

Related Experiment Videos

  • Development and utilization of a FileMaker Pro Developer-based personal database for data management and analysis.
  • Leveraging Unigene information as an internal control for probe set validation.

    • Main Results:

    • Significant variability was observed among different analysis programs in identifying significantly changed genes.
    • The choice of normalization, comparison, and standardization parameters greatly influenced the analysis outcomes.
    • Unigene information proved valuable for confirming and interpreting probe set results.

    Conclusions:

    • Current algorithms for determining gene expression changes require further refinement and standardization.
    • Implementing a personal database integrated with Unigene information can substantially enhance the analysis of gene expression data.
    • Standardized analysis methods and robust data management are essential for reliable microarray study findings.