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Cross-chip probe matching tool: A web-based tool for linking microarray probes within and across plant species.

Ghanekar R, Srinivasasainagendra V, Page GP - Int J Plant Genomics (2008)

Bottom Line: The CCPMT is a free, web-based tool that allows plant investigators to rapidly determine if a given gene is present across various microarray platforms, which, of a list of genes, is present on array(s), and which gene a probe or probe set queries and vice versa, and to compare and contrast the gene contents of arrays.The CCPMT also maps a probe or probe sets to a gene or genes within and across species, and permits the mapping of the entire content from one array to another.By using the CCPMT, investigators will have a better understanding of the contents of arrays, a better ability to link data between experiments, ability to conduct meta-analysis and combine datasets, and an increased ability to conduct data mining projects.

View Article: PubMed Central - PubMed

Affiliation: Department of Electrical and Computer Engineering, University of Alabama at Birmingham, 35294-4461, USA.

ABSTRACT
The CCPMT is a free, web-based tool that allows plant investigators to rapidly determine if a given gene is present across various microarray platforms, which, of a list of genes, is present on array(s), and which gene a probe or probe set queries and vice versa, and to compare and contrast the gene contents of arrays. The CCPMT also maps a probe or probe sets to a gene or genes within and across species, and permits the mapping of the entire content from one array to another. By using the CCPMT, investigators will have a better understanding of the contents of arrays, a better ability to link data between experiments, ability to conduct meta-analysis and combine datasets, and an increased ability to conduct data mining projects.

No MeSH data available.


Related in: MedlinePlus

Workflow for themapping between Affymetrix Poplar, Affymetrix AG, and Affymetrix ATH1arrays.
© Copyright Policy - open-access
Related In: Results  -  Collection


getmorefigures.php?uid=PMC2570748&req=5

fig3: Workflow for themapping between Affymetrix Poplar, Affymetrix AG, and Affymetrix ATH1arrays.

Mentions: As an example, Figure 3 illustrates the mapping of the Affymetrix Poplar Genome Array with theAffymetrix AG and Affymetrix ATH1 arrays; similar processes are used for theother arrays. Table 3 contains the number of matches that were found betweenall possible matches among arrays.


Cross-chip probe matching tool: A web-based tool for linking microarray probes within and across plant species.

Ghanekar R, Srinivasasainagendra V, Page GP - Int J Plant Genomics (2008)

Workflow for themapping between Affymetrix Poplar, Affymetrix AG, and Affymetrix ATH1arrays.
© Copyright Policy - open-access
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2570748&req=5

fig3: Workflow for themapping between Affymetrix Poplar, Affymetrix AG, and Affymetrix ATH1arrays.
Mentions: As an example, Figure 3 illustrates the mapping of the Affymetrix Poplar Genome Array with theAffymetrix AG and Affymetrix ATH1 arrays; similar processes are used for theother arrays. Table 3 contains the number of matches that were found betweenall possible matches among arrays.

Bottom Line: The CCPMT is a free, web-based tool that allows plant investigators to rapidly determine if a given gene is present across various microarray platforms, which, of a list of genes, is present on array(s), and which gene a probe or probe set queries and vice versa, and to compare and contrast the gene contents of arrays.The CCPMT also maps a probe or probe sets to a gene or genes within and across species, and permits the mapping of the entire content from one array to another.By using the CCPMT, investigators will have a better understanding of the contents of arrays, a better ability to link data between experiments, ability to conduct meta-analysis and combine datasets, and an increased ability to conduct data mining projects.

View Article: PubMed Central - PubMed

Affiliation: Department of Electrical and Computer Engineering, University of Alabama at Birmingham, 35294-4461, USA.

ABSTRACT
The CCPMT is a free, web-based tool that allows plant investigators to rapidly determine if a given gene is present across various microarray platforms, which, of a list of genes, is present on array(s), and which gene a probe or probe set queries and vice versa, and to compare and contrast the gene contents of arrays. The CCPMT also maps a probe or probe sets to a gene or genes within and across species, and permits the mapping of the entire content from one array to another. By using the CCPMT, investigators will have a better understanding of the contents of arrays, a better ability to link data between experiments, ability to conduct meta-analysis and combine datasets, and an increased ability to conduct data mining projects.

No MeSH data available.


Related in: MedlinePlus