A 3D Intensity Model Based on Spherical Harmonics for Automatic 3D - - PowerPoint PPT Presentation

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ISBI 2013 Redux Presentation

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A 3D Intensity Model Based on Spherical Harmonics for Automatic 3D Segmentation of Heterochromatin Foci

Simon Eck, Karl Rohr, Andreas Biesdorf, Katharina Muller-Ott, Karsten Rippe and Stefan Worz

Institute: University of Heidelberg, Research Group Genome Organization & Function, Germany

May 5, 2013

Mengliu Zhao MIAL May 5, 2013 1 / 1

ISBI 2013 Redux Presentation

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ISBI 2013 Redux Presentation

A 3D Intensity Model Based on Spherical Harmonics for Automatic 3D Segmentation of Heterochromatin Foci

Analytic representation of star-shaped foci.

Figure : Heterochromatin in a Cell Nucleus in 3D Microscopy

Mengliu Zhao MIAL May 5, 2013 2 / 1

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ISBI 2013 Redux Presentation

A 3D Intensity Model Based on Spherical Harmonics for Automatic 3D Segmentation of Heterochromatin Foci

Ylm =          √ 2N(l,m)Pm

l (cos θ) cos mϕ

m > 0 N(l,0)Pm

l (cos θ)

m = 0 √ 2N(l,|m|)P|m|

l

(cos θ) cos |m|ϕ m < 0 rSH =

L

∑

l=0

[a0

l N0 l P0 l (cos θ) + l

∑

m=1

(am

l cos mϕ + bm l sin mϕ

√ 2Nm

l Pm l )(cos θ)]

gSH,σ(r, θ, ϕ) = Gσ ∗ { 1 0 ≤ r ≤ rSH else gSH,σ(r, θ, ϕ,⃗ v) = ImgBG + (ImgFG − ImgBG)gSH,σ(r, θ, ϕ, θ′) min E = min ∫

ROI

(gSH,σ(r, θ, ϕ,⃗ v) − Img(r, θ, ϕ))2

Mengliu Zhao MIAL May 5, 2013 3 / 1

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ISBI 2013 Redux Presentation

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3D Haar-like Elliptical Features for Object Classification in Microscopy

Fernando Amat and Philipp J.Keller

Howard Hughes Medical Institute, Virginia, USA

May 5, 2013

Mengliu Zhao MIAL May 5, 2013 4 / 1

ISBI 2013 Redux Presentation

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ISBI 2013 Redux Presentation

3D Haar-like Elliptical Features for Object Classification in Microscopy

Mengliu Zhao MIAL May 5, 2013 5 / 1

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ISBI 2013 Redux Presentation

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Detection of Symmetric Junctions in Biological Images Using 2D Steerable Wavelet Transforms

Zsuzsanna Puspoki, Cedric Vonesch and Michael Unser

Ecole Polytechnique Federale de Lausanne, Switzerland

May 5, 2013

Mengliu Zhao MIAL May 5, 2013 6 / 1

ISBI 2013 Redux Presentation

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ISBI 2013 Redux Presentation

Detection of Symmetric Junctions in Biological Images Using 2D Steerable Wavelet Transforms

Mengliu Zhao MIAL May 5, 2013 7 / 1

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ISBI 2013 Redux Presentation

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Microvasculature Network Identification in 3D Fluorescent Microscopy Images

Sepideh Almasi and Eric L.Miller

Tufts University, USA

May 5, 2013

Mengliu Zhao MIAL May 5, 2013 8 / 1

ISBI 2013 Redux Presentation

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ISBI 2013 Redux Presentation

Microvasculature Network Identification in 3D Fluorescent Microscopy Images

Mengliu Zhao MIAL May 5, 2013 9 / 1

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ISBI 2013 Redux Presentation

Microvasculature Network Identification in 3D Fluorescent Microscopy Images

min E = arg max

el,vk m

∑

l=1

αlel +

n

∑

k=1

βkvk (1) s.t. el, vk ∈ {0, 1}, δ(el, vk) = 1 (2) l = 1, 2, ..., m; k = 1, 2, ..., n (3) αl = Hχ(e

||Il ||1 dl )(e

λ△ω( ||Il ||1

dl

) − ˆ

σl − ϕl) (4) βk = −(σk +

clk

∑

l=1

θ) (5)

Mengliu Zhao MIAL May 5, 2013 10 / 1

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ISBI 2013 Redux Presentation

Conclusion

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1 A 3D Intensity Model Based on Spherical Harmonics for Automatic

3D Segmentation of Heterochromatin Foci . .

2 3D Haar-like Elliptical Features for Object Classification in Microscopy

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3 Detection of Symmetric Junctions in Biological Images Using 2D

Steerable Wavelet Transforms . .

4 Microvasculature Network Identification in 3D Fluorescent Microscopy

Images

Mengliu Zhao MIAL May 5, 2013 11 / 1