Editing BioMicroCenter:Education

{{BioMicroCenter}}

The BioMicro Center offers formal training programs for commercial software as well as office hours during which Center staff help with data analysis. The Center also offers a [[BioMicroCenter:microarray club]] every two weeks with expert speakers from various institutes and industries. In addition to the microarray club, the Center sponsors an annual conference with a focus on computational and systems biology.

The BioMicro Center offers a link to current [[BioMicroCenter:microarray publications]] though the [[BioMicroCenter:pubmed search engine]].

The BioMicro Center provides information to users regarding current normalization strategies used in the field. References that our users have found useful are listed below.

==Two color array normalization==

[[BioMicroCenter:Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments]]

(Sandrine Dudoit, Yee Hwa Yang, Matthew J. Callow, and Terence P. Speed) 
([[Image:differentially expressed genes in replicated cDNA microarray experiments|download]])

==Affymetrix (DChip)==

[[BioMicroCenter:Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection]]

(Cheng Li and Wing Hung Wong) PNAS, 2001
([[Image:Model-based analysis of oligonucleotide arrays|download]])

[[BioMicroCenter:Model-based analysis of oligonucleotide arrays: Model validation, design issues and standard error application]]

(Cheng Li and Wing Hung Wong) Genome Biology, 2001
([[Image:Model validation, design issues and standard error application|download]])

==Basic Research Applications of DChip==

[[BioMicroCenter:“Stemness”: Transcriptional Pro.ling of Embryonic and Adult Stem Cells]]
(Miguel Ramalho-Santos, Soonsang Yoon, Yumi Matsuzaki, Richard C. Mulligan, Douglas A. Melton) Science, 2002 
([[Image:Stemness|download]])

==Affymetrix (RMA)==

[[BioMicroCenter:Exploration, Normalization, and Summaries of High Density Oligonucleotide Array Probe Level Data]]

(Rafael A. Irizarry, Bridget Hobbs, Francois Collin, Yasmin D. Beazer-Barclay, Kristen J. Antonellis, Uwe Scherf, Terence P. Speed)
([[Image:High Density Oligonucleotide Array Probe Level Data|download]])

[[BioMicroCenter:Summaries of Affymetrix GeneChip probe level data]] 

(Rafael A. Irizarry, Benjamin M. Bolstad, Francois Collin, Leslie M. Cope, Bridget Hobbs and Terence P. Speed) Nucleic Acids Research, 2003 
([[Image:Summaries of Affymetrix GeneChip probe level data|download]])

[[BioMicroCenter:A comparison of normalization methods for high density oligonucleotide array data based on variance and bias]]

(B. M. Bolstad, R. A. Irizarry, M. Astrand and T. P. Speed) Bioinformatics, 2003 
([[Image:comparison of normalization methods|download]])

==Gene Ontology==

[[BioMicroCenter:GOstat: Find statistically overrepresented Gene Ontologies within a group of genes]]

(Beissbarth T, Speed TP) Bioinformatics, 2004 
([[Image:GOstat]])

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