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http://ipicyt.repositorioinstitucional.mx/jspui/handle/1010/919| Including transcription factor information in the superparamagnetic clustering of microarray data | |
| MARIA DEL PILAR MONSIVAIS ALONSO JORGE CARLOS NAVARRO MUÑOZ LINA RAQUEL RIEGO RUIZ ROMAN LOPEZ SANDOVAL HARET CODRATIAN ROSU | |
| Acceso Abierto | |
| Atribución-NoComercial-SinDerivadas | |
| https://doi.org/10.1016/j.physa.2010.09.006 | |
| Superparamagnetic clustering Similarity measure Microarrays Cell cycle genes Transcription factors | |
| "In this work, we modify the superparamagnetic clustering algorithm (SPC) by adding an extra weight to the interaction formula that considers which genes are regulated by the same transcription factor. With this modified algorithm that we call SPCTF, we analyze Spellman et al. microarray data for cell cycle genes in yeast, and find clusters with a higher number of elements compared with those obtained with the SPC algorithm. Some of the incorporated genes by using SPCFT were not detected at first by Spellman et al. but were later identified by other studies, whereas several genes still remain unclassified. The clusters composed by unidentified genes were analyzed with MUSA, the motif finding using an unsupervised approach algorithm, and this allow us to select the clusters whose elements contain cell cycle transcription factor binding sites as clusters worth of further experimental studies because they would probably lead to new cell cycle genes. Finally, our idea of introducing available infor-mation about transcription factors to optimize the gene classification could be implemented for other distance-based clustering algorithms." | |
| Elsevier | |
| 2010 | |
| Artículo | |
| Inglés | |
| Público en general | |
| M.P. Monsiváis-Alonso, J.C. Navarro-Muñoz, L. Riego-Ruiz, R. López-Sandoval, H.C. Rosu, Including transcription factor information in the superparamagnetic clustering of microarray data, Physica A: Statistical Mechanics and its Applications, Volume 389, Issue 24, 2010, Pages 5689-5697, ISSN 0378-4371, http://dx.doi.org/10.1016/j.physa.2010.09.006. | |
| CIENCIAS FÍSICO MATEMÁTICAS Y CIENCIAS DE LA TIERRA | |
| Versión aceptada | |
| acceptedVersion - Versión aceptada | |
| Aparece en las colecciones: | Publicaciones Científicas Nanociencias y Materiales |
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