2006-08-19

SKY data update and removal of breakpoints

The SKY results for the NCBI cases have been added, resulting in generation of composite imbalance profiles. 
As a reminder: Imbalances are are generated from banding/SKY/MFISH (they are all considered the same quality) first; then, everything found in CGH is added. This seems to be reasonable, as CGH should be better for imbalances, though may miss some changes just appearing in subclones.
However, I have decided to remove the blue breakpoint-bars from the ideograms, as they tended to irritate some users. The data is still available in the downloads, though 

2006-08-17

14795 cases from 577publications

For the update today, I have had a look at the current state of the NCBI SKY/CGH database. I (re-) wrote a parser for their XML file format, which currently only interprets CGH annotations.
Of the 840 human CGH cases from the current NCBI Sky/CGH XML dump, about 600 were included into th edatabase from this source; the remaining cases had been collected from the literature or submitted by the authors to Progenetix.
For cases with both SKY and CGH data, the MFISH/SKY information will be added later.