From 24bef7c939fe6bf454c35171a83bd1a74a6ce62f Mon Sep 17 00:00:00 2001 From: Pjotr Prins Date: Tue, 16 Nov 2021 06:26:08 -0600 Subject: move --- .../starting-from-known-gene/gene-aliases.png | Bin 0 -> 41086 bytes .../global-search-gene.png | Bin 0 -> 47303 bytes .../starting-from-known-gene.md | 33 +++++++++++++++++++++ 3 files changed, 33 insertions(+) create mode 100644 story-boards/starting-from-known-gene/gene-aliases.png create mode 100644 story-boards/starting-from-known-gene/global-search-gene.png create mode 100644 story-boards/starting-from-known-gene/starting-from-known-gene.md (limited to 'story-boards/starting-from-known-gene') diff --git a/story-boards/starting-from-known-gene/gene-aliases.png b/story-boards/starting-from-known-gene/gene-aliases.png new file mode 100644 index 0000000..902723c Binary files /dev/null and b/story-boards/starting-from-known-gene/gene-aliases.png differ diff --git a/story-boards/starting-from-known-gene/global-search-gene.png b/story-boards/starting-from-known-gene/global-search-gene.png new file mode 100644 index 0000000..730e13e Binary files /dev/null and b/story-boards/starting-from-known-gene/global-search-gene.png differ 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: + +
+ +
+ + +## 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: + ++ +
+ +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 -- cgit v1.2.3