CABIMER

Informacion de Interes

• Affymetrix http://www.affymetrix.com/index.affx
• Agilent http://www.home.agilent.com/agilent/home.jspx
• Invitrogen http://www.invitrogen.com/site/us/en/home.html
• Qiagen http://www1.qiagen.com/SelectLocation.aspx
• NCBI http://www.ncbi.nlm.nih.gov/
• SGD http://www.yeastgenome.org/
• Gene Expression Omnibus (GEO) http://www.ncbi.nlm.nih.gov/geo/
• Standford Microarray Database http://smd.stanford.edu/
• Bioconductor http://www.bioconductor.org/
• Gene Ontology http://www.geneontology.org/
• GEPAS http://gepas.bioinfo.cipf.es/

• Unidad de Genómica UCO http://www.uco.es/servicios/scai/genomica.html
• Plataforma Bioinformática de Andalucía http://www.scbi.uma.es/bio/portal/

• Schroeder A, Mueller O, Stocker S, Salowsky R, Leiber M, Gassmann M, Lightfoot S, Menzel W, Granzow M and Ragg T. The RIN: an RNA integrity number for assigning integrity values to RNA measurements. BMC Molecular Biology 2006, 7:3 (31 Jan 2006)

• Imbeaud S, Graudens E, Boulanger V, Barlet X, Zaborski P, Eveno E, Mueller O, Schroeder A, and Auffray C. Towards standardization of RNA quality assessment using user-independent classifiers of microcapillary electrophoresis traces, Nucl. Acids Res. 2005 33: e56.

• Tissue Microarrays Reach New Markets

• RNA Integrity Number (RIN)- Standardization of RNA Quality Control  

• “3´ Expression Array”. GeneChip® Human Genome U133 Arrays.

• “Exon Array”. GeneChip® Human Exon 1.0 ST Array.

• “Gene Array”. GeneChip® Human Gene 1.0 ST Array.

• “Tiling Array (Chip on Chip)”. GeneChip® Human Tiling 2.0R Array Set (14 arrays).

• “Tiling Array (Transcript Mapping)”. GeneChip® Human Tiling 1.0R Array Set (7 arrays).

• “miRNA”.

• Microarray Applications in Infectious Disease (pdf, 252 KB)

• Microarrays in Cancer Research (pdf, 423 KB).

• Chadwick N, Zeef L, Portillo V, Fennessy C, Warrander F, Hoyle S, Buckle AM. Identification of novel Notch target genes in T cell leukaemia. Mol Cancer. 2009 Jun 9;8:35.

• Coram TE, Settles ML, Chen X. Large-scale analysis of antisense transcription in wheat using the Affymetrix GeneChip Wheat Genome Array. BMC Genomics. 2009 May 29;10:253.

• Pascual L, Blanca JM, Cañizares J, Nuez F. Transcriptomic analysis of tomato carpel development reveals alterations in ethylene and gibberellin synthesis during pat3/pat4 parthenocarpic fruit set. BMC Plant Biol. 2009 May 29;9:67.

• Robinson MD, Speed TP. Differential splicing using whole-transcript microarrays. BMC Bioinformatics. 2009 May 22;10:156.

• Ahmed FE, Vos PW, Jeffries C, Wiley JE, Weidner DA, Mota H, Bonnerup C, Sibata C, Allison RR. Differences in mRNA and microRNA microarray expression profiles in human colon adenocarcinoma HT-29 cells treated with either Intensity-modulated Radiation Therapy (IMRT), or Conventional Radiation Therapy (RT). Cancer Genomics Proteomics. 2009 Mar-Apr;6(2):109-27.

• Abdueva D., et al. Experimental Comparison and Evaluation of the Affymetrix Exon and U133 Plus 2.0 GeneChip Arrays. PLoS ONE 2(9):e913 (2007).

• Purdom E., et al. FIRMA: a method for detection of alternative splicing from exon array data. Bioinformatics 24(15):1707-1714 (2008)

• Robinson M. D. and T. P. Speed. A comparison of Affymetrix gene expression arrays. BMC Bioinformatics 8:449 (2007).

• Schutte M., et al. Exon Expression Arrays as a Tool to Identify New Cancer Genes. PLoS ONE 3(8): e3007 (2008).

• Xing Y., et al. MADS: A new and improved method for analysis of differential alternative splicing by exon-tiling microarrays. RNA 14:1470-1479 (2008).

• Yates T., et al. X:Map: annotation and visualization of genome structure for Affymetrix exon array analysis. Nucleic Acids Research 36:D780-D786 (2008).

• The Cancer Genome Atlas Research Network. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature doi:10.1038/nature07385 (2008).

• Chahrour M., et al. MeCP2, a Key Contributor to Neurological Disease, Activates and Represses Transcription. Science 320:1224-1229 (2008).

• Chiao E., et al. Isolation and Transcriptional Profiling of Purified Hepatic Cellsb Derived from Human Embryonic Stem Cells. Stem Cells 26:2032-2041 (2008).

• Sandberg R., et al. Proliferating Cells Express mRNAs with Shortened 3' Untranslated Regions and Fewer MicroRNA Target Sites. Science 320(5883):1643-1647 (2008)

• Kwan T., et al. Genome-wide analysis of transcript isoform variation in humans. Nature Genetics 40(2)225:231 (2008).

• Hung L. H., et al. Diverse roles of hnRNP L in mammalian mRNA processing: A combined microarray and RNAi analysis. RNA 14:284-296 (2008).

• Zhang Z., et al. SMN Deficiency Causes Tissue-Specific Perturbations in the Repertoire of snRNAs and Widespread Defects in Splicing. Cell 133:585-600 (2008).

• James M. Wettenhall , Ken M. Simpson , Keith Satterley * and Gordon K. Smyth . affylmGUI: a graphical user interface for linear modeling of single channel microarray data. Bioinformatics 2006 22(7):897-899.

• Gordon K. Smyth. Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray. Stat Appl Genet Mol Biol. 2004;3:Article3. Epub 2004 Feb 12.

• Rafael A. Irizarry*, Bridget Hobbs, Francois Collin, Yasmin D. Beazer-Barclay, Kristen J. Antonellis, Uwe Scherf and Terence P. Speed. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4:249-264 (2003).