Visual learning and classification of human epithelial type 2 cell images through spontaneous activity patterns

Yang, Yan, Wiliem, Arnold, Alavi, Azadeh, Lovell, Brian C. and Hobson, Peter (2014) Visual learning and classification of human epithelial type 2 cell images through spontaneous activity patterns. Pattern Recognition, 47 7: 2325-2337. doi:10.1016/j.patcog.2013.10.013

Attached Files (Some files may be inaccessible until you login with your UQ eSpace credentials)
Name Description MIMEType Size Downloads

Author Yang, Yan
Wiliem, Arnold
Alavi, Azadeh
Lovell, Brian C.
Hobson, Peter
Title Visual learning and classification of human epithelial type 2 cell images through spontaneous activity patterns
Journal name Pattern Recognition   Check publisher's open access policy
ISSN 0031-3203
Publication date 2014-07
Year available 2013
Sub-type Article (original research)
DOI 10.1016/j.patcog.2013.10.013
Open Access Status
Volume 47
Issue 7
Start page 2325
End page 2337
Total pages 13
Place of publication Kidlington, Oxford, United Kingdom
Publisher Pergamon
Collection year 2014
Language eng
Abstract Identifying the presence of anti-nuclear antibody (ANA) in human epithelial type 2 (HEp-2) cells via the indirect immunofluorescence (IIF) protocol is commonly used to diagnose various connective tissue diseases in clinical pathology tests. As it is a labour and time intensive diagnostic process, several computer aided diagnostic (CAD) systems have been proposed. However, the existing CAD systems suffer from numerous shortcomings due to the selection of features, which is commonly based on expert experience. Such a choice of features may not work well when the CAD systems are retasked to another dataset. To address this, in our previous work, we proposed a novel approach that learns a set of filters from HEp-2 cell images. It is inspired by the receptive fields in the mammalian's vision system, since the receptive fields can be thought as a set of filters for similar shapes. We obtain robust filters for HEp-2 cell classification by employing the independent component analysis (ICA) framework. Although, this approach may be held back due to one particular problem; ICA learning requires a sufficiently large volume of training data which is not always available. In this paper, we demonstrate a biologically inspired solution to address this issue via the use of spontaneous activity patterns (SAP). The spontaneous activity patterns, which are related to the spontaneous neural activities initialised by the chemical release in the brain, are found as the typical stimuli for the visual cell development of newborn animals. In the classification system for HEp-2 cells, we propose to model SAP as a set of small image patches containing randomly positioned Gaussian spots. The SAP image patches are generated and mixed with the training images in order to learn filters via the ICA framework. The obtained filters are adopted to extract the set of responses from a HEp-2 cell image. We then employ regions from this set of responses and stack them into “cubic regions”, and apply a classification based on the correlation information of the features. We show that applying the additional SAP leads to a better classification performance on HEp-2 cell images compared to using only the existing patterns for training ICA filters. The improvement on classification is particularly significant when there are not enough specimen images available in the training set, as SAP adds more variations to the existing data that makes the learned ICA model more robust. We show that the proposed approach consistently outperforms three recently proposed CAD systems on two publicly available datasets: ICPR HEp-2 contest and SNPHEp-2.
Formatted abstract

Keyword HEp 2 cells classification
Independent component analysis
Indirect immunofluorescence
Biologically inspired computer vision
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ
Additional Notes Published online 19 October 2013

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2014 Collection
School of Information Technology and Electrical Engineering Publications
Version Filter Type
Citation counts: TR Web of Science Citation Count  Cited 5 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 7 times in Scopus Article | Citations
Google Scholar Search Google Scholar
Created: Thu, 09 Jan 2014, 15:30:21 EST by Azadeh Alavi on behalf of School of Information Technol and Elec Engineering