Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Videos

Software for quantitation and visualization of expression array data.

¹Department of Medicine, Boston University Medical Center, MA 02118, USA. strehlow@bu.edu

|July 25, 2000

Summary

This software enables rapid analysis of phosphoimages from large array hybridizations. It quantitates thousands of spots per image, facilitating data comparison and visualization for scientific research.

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

Conformational flexibility of phycocyanobilin: an AM1 semiempirical study.

Chemphyschem : a European journal of chemical physics and physical chemistry·2013

Same author

Global expression analysis of the fibroblast transcriptional response to TGFbeta.

Clinical and experimental rheumatology·2004

Same author

Apoptosis-inducing membrane vesicles. A novel agent with unique properties.

The Journal of biological chemistry·2001

Same author

First steps in the phytochrome phototransformation: a comparative femtosecond study on the forward (Pr --> Pfr) and back reaction (Pfr --> Pr).

Biochemistry·2001

Same author

CD95 (Fas) ligand-expressing vesicles display antibody-mediated, FcR-dependent enhancement of cytotoxicity.

Journal of immunology (Baltimore, Md. : 1950)·2000

Same author

Fibroblast heterogeneity in physiological conditions and fibrotic disease.

Springer seminars in immunopathology·2000

Area of Science:

Bioinformatics
Computational Biology
Genomics

Background:

High-throughput biological assays, such as large array hybridizations, generate vast amounts of image data.
Accurate and efficient analysis of this data is crucial for identifying biological patterns and making discoveries.
Existing software may lack compatibility or efficiency for analyzing complex phosphoimage datasets.

Purpose of the Study:

To introduce novel software designed for the comprehensive analysis of phosphoimages from large array hybridizations.
To provide a user-friendly and efficient tool for quantitating and analyzing large-scale biological data.
To enable direct comparison and visualization of data from multiple hybridization experiments.

Main Methods:

Development of a Macintosh PowerPC-compatible software application for image analysis.
Implementation of a user-guided grid-based system for spot identification and coordinate definition.
Automated spot alignment, positional correction, and signal quantitation for up to 27,000 spots per image.
Creation of a 'fingerprint file' format for storing numerical signal values.

Main Results:

The software successfully quantitates signals from individual spots on large array hybridization images.
It allows for direct averaging and comparison of data from independent experiments via fingerprint files.
Users can export data in various spreadsheet formats with background correction options.
Animated, three-dimensional graph outputs facilitate convenient data point visualization.

Conclusions:

The developed software significantly enhances the efficiency and accuracy of phosphoimage analysis in large array hybridizations.
It provides a robust platform for data management, comparison, and visualization, supporting scientific discovery.
The software is freely available, promoting accessibility for researchers in relevant scientific fields.

Related Experiment Videos