On computation of calcium cycling anomalies in cardiomyocytes data

Martti Juhola, Henry Joutsijoki, Kirsi Varpa, Jyri Saarikoski, Jyrki Rasku, Kati Iltanen, Jorma Laurikkala, Heikki Hyyro, Jorge Avalos-Salguero, Harri Siirtola, Kirsi Penttinen, Katriina Aalto-Setala

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

    5 Citations (Scopus)

    Abstract

    Induced pluripotent stem cell (iPSC) lines derived from skin fibroblasts of patients suffering from cardiac disorders were differentiated to cardiomyocytes and used to generate a data set of Ca2+ transients of 136 recordings. The objective was to separate normal signals for later medical research from abnormal signals. We constructed a signal analysis procedure to detect peaks representing calcium cycling in signals and another procedure to classify them into either normal or abnormal peaks. Using machine learning methods we classified signals into normal or abnormal signals on the basis of peak findings in them. We compared classification results obtained to those made visually by an expert biotechnologist who assessed the signals independent of the computer method. Classification accuracies of around 85% indicated high congruence between two modes denoting the high capability and usefulness of computer based processing for the present data.

    Original languageEnglish
    Title of host publication2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014
    PublisherInstitute of Electrical and Electronics Engineers Inc.
    Pages1444-1447
    Number of pages4
    ISBN (Electronic)978-1-4244-7929-0
    DOIs
    Publication statusPublished - 2014
    Publication typeA4 Article in a conference publication
    Event2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014 -
    Duration: 1 Jan 2014 → …

    Conference

    Conference2014 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2014
    Period1/01/14 → …

    Keywords

    • Calcium cycling
    • calcium cycling
    • cardiomyocytes
    • classification
    • signal analysis

    Publication forum classification

    • Publication forum level 1

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