Prioritization:Home
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= Prioritization in a nutshell = | = Prioritization in a nutshell = | ||
| - | + | Parameters: | |
| + | * '''Known genes''': candidate genes will be evaluated (proximity) with respect to the known genes. Thus, they should represent some biological process of interest. | ||
| + | * '''Candidate genes''': can be any set of genes (that are not already provided in the known genes, otherwise they will be discarded from the candidates). If left blank, the rest of the genome is prioritized. | ||
| + | * Perform a '''Leave-one-out cross validation''' to evaluate the performance of the prioritization based on the provided known genes. | ||
| + | * data source(s): prioritization by proximity will be performed for each data source separately, then fused to obtain a final global prioritization. | ||
| + | = Data sources = | ||
| + | The following data sources are currently available: | ||
* [[Prioritization:Phylogenetic profiles|Phylogenetic profiles]] | * [[Prioritization:Phylogenetic profiles|Phylogenetic profiles]] | ||
| - | * [[Interactome]] | + | * [[Prioritization:Interactome|Interactome]] |
| - | * [[Prioritization:Pathways]] | + | * [[Prioritization:Pathways|Pathways]] |
| - | * [[Prioritization:Gene Ontology]] | + | * [[Prioritization:Gene Ontology|Gene Ontology]] |
| - | * [[Transcriptome]] | + | * [[Prioritization:Transcriptome|Transcriptome]] |
| - | * [[Prioritization:String]] | + | * [[Prioritization:String|String]] |
| + | |||
| + | = See also = | ||
| + | * Aerts Stein, Lambrechts Diether, Maity Sunit, Van Loo Peter, Coessens Bert, De Smet Frederik, Tranchevent Leon, De Moor Bart, Marynen Peter, Hassan Bassem, Carmeliet Peter, Moreau Yves (2006) '''Gene prioritization through genomic data fusion'''. ''Nature Biotechnology'', 24, 537-544. [http://www.nature.com/nbt/journal/v24/n5/abs/nbt1203.html abstract] | ||
Revision as of 13:53, 18 January 2011
Prioritization in a nutshell
Parameters:
- Known genes: candidate genes will be evaluated (proximity) with respect to the known genes. Thus, they should represent some biological process of interest.
- Candidate genes: can be any set of genes (that are not already provided in the known genes, otherwise they will be discarded from the candidates). If left blank, the rest of the genome is prioritized.
- Perform a Leave-one-out cross validation to evaluate the performance of the prioritization based on the provided known genes.
- data source(s): prioritization by proximity will be performed for each data source separately, then fused to obtain a final global prioritization.
Data sources
The following data sources are currently available:
See also
- Aerts Stein, Lambrechts Diether, Maity Sunit, Van Loo Peter, Coessens Bert, De Smet Frederik, Tranchevent Leon, De Moor Bart, Marynen Peter, Hassan Bassem, Carmeliet Peter, Moreau Yves (2006) Gene prioritization through genomic data fusion. Nature Biotechnology, 24, 537-544. abstract
