I think it would be important to track all the diseases that make the top 10 throughout the year. For example, even though "Disease F" doesn't make the top 10 in the second Q, it should still be 1) tallied for the yearly totals and 2) plotted on the chart. This means you may well have to track 15 or 20 diseases to make sure you get the data needed for the "Top 10".
If you don't do this then a couple problems appear
1) Darius' chart implies that there was a 100% change in F & Z, although that is almost certainly not the case.
2) Steven's total ranking for the year would not be accurate. A disease ranked 250 each quarter would come in above a disease ranked 500 for 2 quarters and 150 for 2 quarters (since these would not get ranked in the Top 10 with that value).
I could also imagine cases where a disease ranked steadily at #11 all year would end up in the Top 10 for the year. This would create another challenge to the process.
I took a stab at the graph (inventing numbers for F & Z for the unavailable data). For months where a disease dropped out of the top 10, I added stripes to the corresponding bar. I did this manually, but I bet there is some way to do it automatically.
Tim F