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

Optimization of oligonucleotide microarray fabricated by spotting 65-mer.

Myoyong Lee1, Jeffrey M Trent, Michael L Bittner

  • 1Cancer Genetics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA. myoyong.lee@samsung.com

Analytical Biochemistry
|July 10, 2007
PubMed
Summary
This summary is machine-generated.

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

Longitudinal Single-Cell RNA-Sequencing Reveals Evolution of Micro- and Macro-states in Chronic Myeloid Leukemia.

Cancer research·2026
Same author

A Model for Clinician and Staff Education in the Engagement of American Indians in Genomic Research.

Journal of cancer education : the official journal of the American Association for Cancer Education·2026
Same author

Genomic Landscape Analysis of Canine Pulmonary Adenocarcinoma Reveals Candidate Targetable Gene Fusions.

Veterinary and comparative oncology·2026
Same author

A Concordance Study among 26 NGS Laboratories Participating in the NCI Molecular Analysis for Therapy Choice Clinical Trial.

Clinical cancer research : an official journal of the American Association for Cancer Research·2025
Same author

Loss of SMARCA4 Leads to Intron Retention and Generation of Tumor-Associated Antigens in Small Cell Carcinoma of the Ovary, Hypercalcemic Type.

Cancer research·2025
Same author

Super-enhancers and efficacy of triptolide in small cell carcinoma of the ovary hypercalcemic type.

iScience·2025
Same journal

Lysozyme assay using a rationally designed GN4G2 substrate with coupled β-glucosidase reaction.

Analytical biochemistry·2026
Same journal

The long run: A tribute to Arthur Joseph Lawrence Cooper.

Analytical biochemistry·2026
Same journal

Evaluation of a method for affinity measurement using solution equilibrium titration with magnetic beads.

Analytical biochemistry·2026
Same journal

Metabolomics approach using UHPLC/QE-MS for the mechanism of He Xue Ming Mu tablets on non-proliferative diabetic retinopathy.

Analytical biochemistry·2026
Same journal

UniRES-GO: Unified residue-level early fusion of sequence and predicted structure for protein function prediction.

Analytical biochemistry·2026
Same journal

IgG detection by enzyme-linked mass spectrometric assay versus color, fluorescent, ECL in buffer and serum.

Analytical biochemistry·2026
See all related articles

Optimized DNA microarray methods improve gene expression analysis reliability. Custom aldehyde slides offer superior performance over commercial options, enabling precise gene regulation studies.

Area of Science:

  • Molecular Biology
  • Genomics
  • Biotechnology

Background:

  • DNA microarrays are crucial for studying gene regulation and cellular processes.
  • Ongoing research aims to enhance microarray measurement precision through improved fabrication and hybridization techniques.

Purpose of the Study:

  • To optimize oligonucleotide microarray fabrication and hybridization for improved data reliability and precision.
  • To compare the performance of custom-made aldehyde slides with commercially available microarray substrates.

Main Methods:

  • Oligonucleotide microarrays were prepared by printing 65-mer probes on aldehyde functional group-derivatized slides.
  • Enzymatic bias was minimized during probe labeling, and hybridization was performed under stringent conditions.
  • Gene expression profiling was conducted on nine mouse tissues, with data analyzed using multidimensional scaling (MDS).

Related Experiment Videos

  • Comparative analysis included microarrays from commercial substrates and reverse transcription-polymerase chain reaction (RT-PCR).

    • Main Results:

    • The optimized method, using custom aldehyde slides, demonstrated improved data reliability.
    • Multidimensional scaling (MDS) analysis revealed high reproducibility and clear separation between different mouse tissue samples.
    • Custom aldehyde slides outperformed commercial substrates in signal intensity, background noise, and hybridization characteristics.
    • Gene expression data from custom microarrays showed good agreement with RT-PCR for transcript abundance changes up to 100-fold.

    Conclusions:

    • Optimized DNA microarray protocols enhance the reliability and precision of gene expression analysis.
    • Custom aldehyde slides represent a superior platform for microarray fabrication compared to commercial alternatives.
    • This improved microarray technology facilitates robust gene regulation studies and tissue-specific expression profiling.