Choose one of the population characteristics (all patients, oestrogen receptor,
progesterone receptor, oestrogen and progesterone receptor combinations,
intrinsic molecular subtypes [from PAM50], intrinsic molecular subtypes [from RIMSPC],
basal-like/TNBC status or TNBC subtypes) of the cohorts to be explored.
These datasets are retrieved from
Once the 2 criteria have been chosen, click on "Submit".
After submission, a validation page shows detailed information about:
genes located around the chosen gene (up to 15 up and 15 down) on the same chromosome, including itself,
patients from original studies tested,
1 complete data before filtering;
2 number of genes found;
3 patients finally analysed (if no missing genomic data).
At this step, you can validate or cancel your submission according
to these intermediate descriptive data summarized at the bottom of the page.
Each population criterion is assigned to one button, while clicking on it the corresponding results table will be displayed.
The color buttons menu shows the correlation score codes colors,
indicating the correlation of your gene with the genes of the chromosome neighborhood, respecting chromosomal location.
In this case, tables corresponding to analysis for patients from the four molecular subtypes, as determined by the
can be displayed by clicking on the corresponding button in this upper menu.
Results are displayed in a table giving, for each gene, the gene symbol, the precise location on the chromosome (start, end, strand and cytoband)
and the correlation coefficient, associated p-value and number of patients of the correlation with the chosen gene, for the analysis with all patients (here Luminal B patients are shown).
Help to interpret correlation coefficient value is available by clicking on the "?" symbol below the colour scale.
Correlation plots can be displayed by clicking on cells of the leftmost (coloured) column.
Additionally, targeted correlation analyses (TCA) can be conducted with specific genes:
consecutive genes (n ≤ 20) can be selected by checking the boxes of the "TCA" column corresponding to the "extreme" genes;
clicking then on the "Submit" button at the bottom of the column displays the associated
TCA here aims at evaluating the robustness of clusters: correlation analyses are automatically computed between all possible pairs of genes
that compose a selected cluster.
Mousing over the colored boxes of the correlation map gives corresponding correlation elements (involved genes symbols, correlation coefficient,
p-value and number of patients).