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I want to collect data on how common different diseases are in different populations (or, at least, globally). Ideally, it would give me a way of querying the database with a disease name, and would return the number of cases per N population.

I have found FIDD, but it seems to be no longer maintained. Are there any actively maintained, similar tools that have the information I am after?

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  • $\begingroup$ The only way I was aware was looking for a paper for each disease I am interested in. WHO might have some kind of report or data. How much up to date should be the numbers (<7 years) ? $\endgroup$ – llrs Oct 19 '17 at 11:15
  • $\begingroup$ @Llopis hmm, good question. My main objective is to have a general idea of how prevalent a disease is, so I am not too bothered if the information is a little out of date. I am not interested in tracking current outbreaks or anything like that, this will be used as information to characterize genetic variants. So, yes, the newer the better, but I can live with older data. My main problem with FIDD is that it isn't maintained which can lead to other issues, most importantly missing data. I can't look for papers because this needs to be automated and work for arbitrary diseases. $\endgroup$ – terdon Oct 19 '17 at 11:22
  • $\begingroup$ Looks like the usual suspects (Thomson Reuters) have this wrapped up in a proprietary, locked-down paid package :) tdrdata.com/ipd/ipd_init $\endgroup$ – neilfws Oct 19 '17 at 22:49
  • $\begingroup$ @neilfws oh hey, that looks interesting. Please post it as an answer. I actually have a budget for this, it might be just what I need. $\endgroup$ – terdon Oct 20 '17 at 7:10
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    $\begingroup$ @Chris_Rands no, no genetic/genomic contents, but why would that make a difference? Bioinformatics is in no way limited to genomics! I am asking for a database of biomedical data which is what I feel makes it on topic. I also feel this is a useful category of questions since finding the right DB is often half the work. But I'm not laying down the law as a mod here, that's just my personal take. If the community feels these are off topic, then fine, but we'll have to have a meta discussion first. $\endgroup$ – terdon Oct 20 '17 at 14:29
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For rare diseases, you can use Orphanet. You can download an xml file with prevalence from orphadata.

There is an OWL version of Orphanet called ORDO, you can browse it on the EBI Ontology Lookup Service. See for example Arrhythmogenic right ventricular cardiomyopathy and point prevalence relationships in the lower right box. There are a variety of programmatic ways to access this, including the OLS web API, SPARQL queries, or downloading the OWL and using an ontology API.

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Comment as an answer, as requested.

The Incidence and Prevalance Database (IPD - subscription required).

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