Identifying genes from up-down properties of microarray expression series
Autor: | Jean-Pierre Nadal, François Radvanyi, Thomas M. A. Fink, Karen Willbrand, Jean Paul Thiery |
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Přispěvatelé: | Laboratoire de Physique Statistique de l'ENS (LPS), Université Paris Diderot - Paris 7 (UPD7)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Fédération de recherche du Département de physique de l'Ecole Normale Supérieure - ENS Paris (FRDPENS), École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Compartimentation et dynamique cellulaires (CDC), Centre National de la Recherche Scientifique (CNRS)-Institut Curie [Paris]-Université Pierre et Marie Curie - Paris 6 (UPMC), Fédération de recherche du Département de physique de l'Ecole Normale Supérieure - ENS Paris (FRDPENS), École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut Curie [Paris]-Centre National de la Recherche Scientifique (CNRS) |
Rok vydání: | 2005 |
Předmět: |
Statistics and Probability
Time Factors Microarray MESH: Algorithms Computational biology computer.software_genre Biochemistry Pattern Recognition Automated MESH: Gene Expression Profiling 03 medical and health sciences 0302 clinical medicine MESH: Pattern Recognition Automated Molecular Biology Gene Oligonucleotide Array Sequence Analysis 030304 developmental biology Mathematics Sequence (medicine) 0303 health sciences Series (mathematics) Gene Expression Profiling MESH: Time Factors Function (mathematics) Expression (computer science) MESH: Gene Expression Regulation [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] Computer Science Applications Computational Mathematics Data point Gene Expression Regulation Computational Theory and Mathematics MESH: Oligonucleotide Array Sequence Analysis Data mining DNA microarray computer Algorithms 030217 neurology & neurosurgery |
Zdroj: | Bioinformatics Bioinformatics, Oxford University Press (OUP), 2005, 21 (20), pp.3859-64. ⟨10.1093/bioinformatics/bti549⟩ Bioinformatics, 2005, 21 (20), pp.3859-64. ⟨10.1093/bioinformatics/bti549⟩ |
ISSN: | 1460-2059 1367-4803 1367-4811 |
DOI: | 10.1093/bioinformatics/bti549 |
Popis: | International audience; MOTIVATION: We consider any collection of microarrays that can be ordered to form a progression; for example, as a function of time, severity of disease or dose of a stimulant. By plotting the expression level of each gene as a function of time, or severity, or dose, we form an expression series, or curve, for each gene. While most of these curves will exhibit random fluctuations, some will contain a pattern, and these are the genes that are most likely associated with the quantity used to order them. RESULTS: We introduce a method of identifying the pattern and hence genes in microarray expression curves without knowing what kind of pattern to look for. Key to our approach is the sequence of ups and downs formed by pairs of consecutive data points in each curve. As a benchmark, we blindly identified genes from yeast cell cycles without selecting for periodic or any other anticipated behaviour. CONTACT: tmf20@cam.ac.uk SUPPLEMENTARY INFORMATION: The complete versions of Table 2 and Figure 4, as well as other material, can be found at http://www.lps.ens.fr/~willbran/up-down/ or http://www.tcm.phy.cam.ac.uk/~tmf20/up-down/ |
Databáze: | OpenAIRE |
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