Discovering novelty in sequential patterns: application for analysis of microarray data on Alzheimer disease

Sandra Bringay 1, 2, * Mathieu Roche 3 Maguelonne Teisseire 4, 1 Pascal Poncelet 1 Ronza Abdel Rassoul 5 Jean-Michel Verdier 5 Gina Devau 5
* Corresponding author
1 TATOO - Fouille de données environnementales
LIRMM - Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier
2 UM3 - Université Paul-Valéry - Montpellier 3
3 TEXTE - Exploration et exploitation de données textuelles
LIRMM - Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier
4 UMR TETIS - Territoires, Environnement, Télédétection et Information Spatiale
5 MMDN - Mécanismes moléculaires dans les démences neurodégénératives
Abstract : Analyzing microarrays data is still a great challenge since existing methods produce huge amounts of useless results. We propose a new method called NoDisco for discovering novelties in gene sequences obtained by applying data-mining techniques to microarray data. Method: We identify popular genes, which are often cited in the literature, and innovative genes, which are linked to the popular genes in the sequences but are not mentioned in the literature. We also identify popular and innovative sequences containing these genes. Biologists can thus select interesting sequences from the two sets and obtain the k-best documents. Results: We show the efficiency of this method by applying it on real data used to decipher the mechanisms underlying Alzheimer disease. Conclusion: The first selection of sequences based on popularity and innovation help experts focus on relevant sequences while the top-k documents help them understand the sequences.
Keywords : Alzheimer Disease Information Retrieval DNA Microarrays
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Conference papers
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CNRS | CIRAD | EPHE | MMDN | AGROPARISTECH | IRSTEA | TEXTE | AGROPOLIS | LIRMM | PSL | MIPS | BS | UNIV-MONTPELLIER | UNIV-MONTP3

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Sandra Bringay, Mathieu Roche, Maguelonne Teisseire, Pascal Poncelet, Ronza Abdel Rassoul, et al.. Discovering novelty in sequential patterns: application for analysis of microarray data on Alzheimer disease. MedInfo: Congress on Medical Informatics, Sep 2010, Cape Town, South Africa. pp.1314-1318. ⟨hal-00558156⟩

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