Classification of iPSC Colony Images Using Hierarchical Strategies with Support Vector Machines

Henry Joutsijoki, Jorge Avalos-Salguero, Kati Iltanen, Jorma Laurikkala, Kirsi Penttinen, Jari Hyttinen, Katriina Aalto-Setälä, Martti Juhola, Jyrki Rasku, Markus Haponen, Ivan Baldin, Yulia Gizatdinova, Michelangelo Paci, Jyri Saarikoski, Kirsi Varpa, Harri Siirtola

    Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

    8 Citations (Scopus)


    In this preliminary research we examine the suitability of hierarchical strategies of multi-class support vector machines for classification of induced pluripotent stem cell (iPSC) colony images. The iPSC technology gives incredible possibilities for safe and patient specific drug therapy without any ethical problems. However, growing of iPSCs is a sensitive process and abnormalities may occur during the growing process. These abnormalities need to be recognized and the problem returns to image classification. We have a collection of 80 iPSC colony images where each one of the images is prelabeled by an expert to class bad, good or semigood. We use intensity histograms as features for classification and we evaluate histograms from the whole image and the colony area only having two datasets. We perform two feature reduction procedures for both datasets. In classification we examine how different hierarchical constructions effect the classification. We perform thorough evaluation and the best accuracy was around 54% obtained with the linear kernel function. Between different hierarchical structures, in many cases there are no significant changes in results. As a result, intensity histograms are a good baseline for the classification of iPSC colony images but more sophisticated feature extraction and reduction methods together with other classification methods need to be researched in future.

    Original languageEnglish
    Title of host publicationProceedings of 2014 IEEE SSCI 2014 - Symposium on Computational Intelligence and Data Mining - CIDM 2014
    Number of pages7
    ISBN (Print)978-1-4799-4519-1
    Publication statusPublished - 2015
    Publication typeA4 Article in conference proceedings
    EventIEEE Symposium on Computational Intelligence and Data Mining -
    Duration: 1 Jan 2014 → …


    ConferenceIEEE Symposium on Computational Intelligence and Data Mining
    Period1/01/14 → …

    Publication forum classification

    • Publication forum level 1

    ASJC Scopus subject areas

    • Artificial Intelligence
    • Information Systems
    • Signal Processing
    • Software


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