DNA MicroArray Image Processing Case Study

Case study used in Biomedical and Image Processing seminars (highlights algorithm development).

Description

In one type of gene expression analysis, fluorescently tagged messenger RNA from different cells are hybridized to a microscopic array of thousands of complimentary DNA spots that correspond to different genes. Illuminated spots emit different color light, indicating which genes are expressed (e.g., green=control, red=sample, yellow=both).

In this case study, MATLAB, the Image Processing and Signal Processing toolboxes were used to determine the green intensities from a small portion of a microarray image containing 4,800 spots. A 10x10 pattern of spots was detected by averaging rows and columns to produce horizontal and vertical profiles. Periodicity was determined automatically by autocorrelation and used to form an optimal length filter for morphological background removal. A rectangular grid of bounding boxes was defined. Each spot was individually addressed and segmented by thresholding to form a mask. The mask was used to isolate each spot from surrounding background. Individual spot intensity was determined by integrating pixel intensities. Finally, integrated intensities were tabulated and saved to a data file for subsequent statistical analysis to determine which genes matter most.

With the MATLAB code and example image in this package you can follow the steps used for this application.

• Required Products: Image Processing Toolbox; Signal Processing Toolbox
• MATLAB release: MATLAB 7 (R14)

[Helen Chen]

 

[B.K. Mishra]

hi every body can any body tell me how we use support vector clustering for classify DNA microarray

[Esteban A. Vidal]

Thank you so much! Nice work, very useful for my thesis

[Leo T]

thanks ! this file help me do my project for ICA and microarray ^^!

[Saeed Arshad]

Best

[Danie John]

This is a wonderful example

[M Mehta]

 

[ABHISHEK TRIPATHI]

SUPERBEB VERY HELPING IN MY PROJECT

[Luigi Rosa]

Research work

[Hadi Hosseinzadegan]

Thank you, The file helped my project

[ali haider]

thanks

[Haig Djambazian]

The fucntion strel is missing from the downloaded files.

[anvesh reddy]

 

[Vibhor Maheshwari]

Can we have some more Bio Image processing examples

[maheswar gunampally]

it is excellent.very ingormatine

[howard li]

 

[amol ingole]

i got good information from this file.i am doing project in microarray image processing.