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Nucleus Classification

Nucleus Classification. By Venkata sandeep kumar C hithirala Harik kumar Mahareddy Harsha Gaddam. Objectives. Classification of nuclei. Based on circularity , volume , density/texture.

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Nucleus Classification

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  1. Nucleus Classification By VenkatasandeepkumarChithirala HarikkumarMahareddy HarshaGaddam

  2. Objectives • Classification of nuclei. • Based on circularity , volume , density/texture. • Volume ,area and density of nucleolus. • Volume ,area and density of heterochromatin.

  3. Actual nucleus

  4. Nucleus given in the 3DEM DATA

  5. Features • The nucleolus is not constant it keeps on changing from one slice to other slice. • The nucleus position is also not constant . • Some particles look similar to nucleus.

  6. Plugin • Automatic segmentation and finding the position of various nucleus. • Using filters and threshold. • Then we take those positions and select regions in original image and then calculate the various aspects required by calculating the intensity value. • Particular nucleus present at a position is considered and then we move through all slices to get the best output.

  7. Automatic selection of the nucleus • Firstly we apply bilateral filter . • Then we apply the sobel edge detection. • By adjusting the threshold values and analyzing the particles we find the nucleus positions.

  8. Result

  9. measurement • Manual measurement of nucleus can be done . By selecting the area. • We have set the scale by a known length and then go to analyze -> measure . • We will get the nucleus area.

  10. Future work • Customized plugin which automatically finds area and volume of nuclei without manual measurements. • Segmenting nucleolus by finding the variations of intensities and finding its area and volume

  11. References • http://rsbweb.nih.gov/ij/download.html • http://www.youtube.com/watch?v=8c68qIz_ftw • http://www.youtube.com/watch?v=8U_OGk1XObE • http://www.biomedcentral.com/1471-2121/8/40

  12. Thank you

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