Harmonic filters for 3D multichannel data: rotation invariant detection of mitoses in colorectal cancer.
In this paper, we present a novel approach for a trainable rotation invariant detection of complex structures in 3D microscopic multichannel data using a nonlinear filter approach. The basic idea of our approach is to compute local features in a window around each 3D position and map these features by means of a nonlinear mapping onto new local harmonic descriptors of the local window. These local harmonic descriptors are then combined in a linear way to form the output of the filter. The optimal combination of the computed local harmonic descriptors is determined in previous training step, and allows the filter to be adapted to an arbitrary structure depending on the problem at hand. Our approach is not limited to scalar-valued images and can also be used for vector-valued (multichannel) images such as gradient vector flow fields. We present realizations of a scalar-valued and a vector-valued multichannel filter. Our proposed algorithm was quantitatively evaluated on colorectal cancer cell lines (cells grown under controlled conditions), on which we successfully detected complex 3D mitotic structures. For a qualitative evaluation we tested our algorithms on human 3D tissue samples of colorectal cancer. We compare our results with a steerable filter approach as well as a morphology-based approach.
Schlachter
Matthias
M
Computer Science Department, University of Freiburg, 79110 Freiburg, Germany.
Reisert
Marco
M
Herz
Corinna
C
Schlürmann
Fabienne
F
Lassmann
Silke
S
Werner
Martin
M
Burkhardt
Hans
H
Ronneberger
Olaf
O
D000465:Algorithms; D064127:Aurora Kinases; D045744:Cell Line, Tumor; D015179:Colorectal Neoplasms / Q000378:metabolism / Q000473:pathology*; D006801:Humans; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D007150:Immunohistochemistry; D008856:Microscopy, Fluorescence / Q000379:methods*; D008938:Mitosis / Q000502:physiology*; D017711:Nonlinear Dynamics; D016011:Normal Distribution; D017346:Protein Serine-Threonine Kinases / Q000737:chemistry; D015203:Reproducibility of Results
D064127:Aurora Kinases; D017346:Protein Serine-Threonine Kinases