After developing custom aCGH to "rev ish" conversion scripts for each aCGH data table I could get hold of, I have developed a basic online application. The aCGH2ProgenetiXML conversion script lets you move your array CGh or matrix CGH data tables to the ProgenetiXML format, generating 862 bands based chromosomal annotation (ISCN 1995 rev ish), ideogram etc.
You can use log ratio or status data, and adjust to the data by using case specific or general thresholds. Please drop me a note for features/complaints.
Enjoy http://www.progenetix.de/~pgscripts/cgi-bin/front_aCGH2ProgenetiXML.cgi (address subject to change, as always use www.progeentix.net, and follow the links).
2006-12-06
Updates of tools and appearance
There has been an ongoing refinement of the data analysis tools, which should make them more user-friendly: enjoy!
Also, CGH ideograms have gotten some background shading for regions with sometimes ambiguous CGH results (centromers, 1ptel ...); the same bands can be deselected from the analysis, when generating heatmaps etc.
As for the content: no new cases right now, but there has been a revisiting of some of the ICD codes (e.g. in breast carcinomas).
Also, CGH ideograms have gotten some background shading for regions with sometimes ambiguous CGH results (centromers, 1ptel ...); the same bands can be deselected from the analysis, when generating heatmaps etc.
As for the content: no new cases right now, but there has been a revisiting of some of the ICD codes (e.g. in breast carcinomas).
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