Magnus is right on here. We are hoping to begin things by establishing
wikidata as a central hub for gene identifier lookup and matching. (This
is a big a problem in bioinformatics). With this (hopefully fairly bit
stable) starting point of wikidata entities, we will be expanding the
statements attached to the genes to enable many different kinds of
queries. For example, "what genes that encode proteins that are located in
the cell membrane are known to be related to alzheimer's disease?". In
particular we are hoping to build a network of relationships between genes,
drugs, and diseases..
So, for now identifier matching queries, tomorrow the world ;).
And more importantly.. Given these gene starting points in the wikidata
entity space, we can do queries over whatever anyone else decides to hook
up to them! Go nuts! (but add your evidence please..)
-Ben
On Wed, Oct 8, 2014 at 7:47 AM, Magnus Manske <magnusmanske(a)googlemail.com>
wrote:
For one thing, they could serve as an alternative,
stable identifier.
You can link up different, external identifiers, such as Entrez and HGNC:
https://tools.wmflabs.org/wikidata-todo/beacon.php?prop=351&source=354
(you can probably do that elsewhere, but Wikidata should attract more ID
systems over time).
You can look up the Entrez ID:
https://tools.wmflabs.org/wikidata-todo/autolist2.php?language=en&proje…
You can ask "which genes encode proteins that are involved in cell cycle
checkpointing?":
https://tools.wmflabs.org/wikidata-todo/autolist2.php?language=en&proje…
Once we get "typed quantities" (how's that coming along??), you can also
query on chromosome/region.
On Wed, Oct 8, 2014 at 2:28 PM, Derric Atzrott <
datzrott(a)alizeepathology.com> wrote:
This sounds important, but what sort of queries
might someone
want to run on this data? Despite working at a bio-lab, I
am actually not terribly familiar with the human genome and
therefore the types of questions having this data on Wikidata
can answer.
Does anyone have a few example queries (don't have to be
possible to execute right now) to show what this could
be used for?
Thank you,
Derric Atzrott
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