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diff --git a/story-boards/starting-from-known-gene/starting-from-known-gene.md b/story-boards/starting-from-known-gene/starting-from-known-gene.md new file mode 100644 index 0000000..2370521 --- /dev/null +++ b/story-boards/starting-from-known-gene/starting-from-known-gene.md @@ -0,0 +1,33 @@ +# Storyboard: starting from a known gene + +GeneNetwork contains data on thousands of experiments. How do you mine GN when you have the name of a gene? Start with [BRCA2](https://genenetwork.org/genes/BRCA2). + +## Use the search page + +The top bar of GeneNetwork shows a global search. We can look for the `Brca2` mouse gene: + +<p align="center"> + <img src="global-search-gene.png" alt="Global gene search"/> +</p> + + +## Find the right alias/name + +GeneNetwork knows about aliases. But sometimes you want to check what aliases there are in mouse. If you search for BRCA2 and click on a search result, for example for [1448542_at](http://genenetwork.org/show_trait?trait_id=1448542_at&dataset=HC_M2_0606_P), +you get to the 'trait page' which shows the aliases: + +<p align="center"> + <img src="gene-aliases.png" alt="Gene aliases"/> +</p> + +GeneNetwork ignores case by default. In a search use quotes to search case sensitive. For example, [BRCA2](https://www.wikidata.org/wiki/Q17853272) on wikidata.org refers to the human gene. The mouse gene is named [Brca2](https://www.wikidata.org/wiki/Q14864738). + +## Find the GeneNetwork genewiki entry + +GeneNetwork maintains info on gene entries. For example for [BRCA2](http://gn1.genenetwork.org/webqtl/main.py?FormID=geneWiki&symbol=BRCA2). + +## TODO + +* [ ] expand story line +* [ ] global search is faulty, see gn-gemtext-threads/issues/genenetwork/global-search.gmi +* [ ] migrate GeneWiki entries |