aboutsummaryrefslogtreecommitdiff
path: root/templates
diff options
context:
space:
mode:
authorPjotr Prins2024-06-22 04:27:44 -0500
committerPjotr Prins2024-06-22 04:27:44 -0500
commitfd0d852cc46ae5e23341358682e7d8e682c81414 (patch)
tree035fde0e6cfc08c066900a54ff601f01003d210d /templates
parenta223741881aadb73e75ed6d5d7d4e20dca1cda90 (diff)
downloadgenecup-fd0d852cc46ae5e23341358682e7d8e682c81414.tar.gz
Add footer and version info
Diffstat (limited to 'templates')
-rw-r--r--templates/about.html36
-rw-r--r--templates/layout.html15
2 files changed, 28 insertions, 23 deletions
diff --git a/templates/about.html b/templates/about.html
index bdf52f7..3cdefc5 100644
--- a/templates/about.html
+++ b/templates/about.html
@@ -7,25 +7,25 @@
<h3> About GeneCup </h3>
<hr>
- <p>GeneCup searches PubMed to find abstracts containing genes of interest and keywords in the custom ontologies.
- The title and abstracts corresponding to the PMIDs are then retrieved from a
- <a href="https://dataguide.nlm.nih.gov/edirect/archive.html">local archive of the PubMed</a>.
- No limit on the date of publication is set. Each abstract is then broken down into sentences,
- which are then filtered by gene names and keywords. We also parse the GWAS catalog to obtain
+ <p>GeneCup searches PubMed to find abstracts containing genes of interest and keywords in the custom ontologies.
+ The title and abstracts corresponding to the PMIDs are then retrieved from a
+ <a href="https://dataguide.nlm.nih.gov/edirect/archive.html">local archive of the PubMed</a>.
+ No limit on the date of publication is set. Each abstract is then broken down into sentences,
+ which are then filtered by gene names and keywords. We also parse the GWAS catalog to obtain
genetics associations with the keywords of the custom ontology.
- <p>A list of curated <a href="/ontology">addiction-related keywords</a> can be used to search
- addiction-related genes. We compiled the most studied 100 addiction related genes
- by searching 29,761 human genes against addiction related keywords.
- To ensure comprehensive coverage, gene alias obtained from NCBI gene database were included in the search.
- The results were extensively curated to remove over 900 alias that matched words
- that were not gene name or wrong genes. Some incorrect results remained because the same name
- also produced correct results. The resulting 61,000 sentences are archived localy and can be accessed
- via the <a href="/allTopGenes">Addiction Genes</a> link. We also archived 5.3 million PMIDs
- associated with these gene for efficient search of query gene to addiction gene relations.
- We obtain 23,000 genetics associations with the addiction and psychiatric phenotypes from GWAS catalog.
+ <p>A list of curated <a href="/ontology">addiction-related keywords</a> can be used to search
+ addiction-related genes. We compiled the most studied 100 addiction related genes
+ by searching 29,761 human genes against addiction related keywords.
+ To ensure comprehensive coverage, gene alias obtained from NCBI gene database were included in the search.
+ The results were extensively curated to remove over 900 alias that matched words
+ that were not gene name or wrong genes. Some incorrect results remained because the same name
+ also produced correct results. The resulting 61,000 sentences are archived localy and can be accessed
+ via the <a href="/allTopGenes">Addiction Genes</a> link. We also archived 5.3 million PMIDs
+ associated with these gene for efficient search of query gene to addiction gene relations.
+ We obtain 23,000 genetics associations with the addiction and psychiatric phenotypes from GWAS catalog.
These results are included in the search by default.
-
+
<p> We plan to update the local PubMed archive daily and the EBI GWAS catalog quarterly.
</div>
@@ -37,9 +37,7 @@
Cite: Gunturkun MH, Flashner E, Wang T, Mulligan MK, Williams RW, Prins P, Chen H. <a href="https://academic.oup.com/g3journal/article/12/5/jkac059/6548160" target=_new>GeneCup: mining PubMed and GWAS catalog for gene-keyword relationships.</a> G3 (Bethesda). 2022 May 6;12(5):jkac059. doi: 10.1093/g3journal/jkac059. PMID: 35285473; PMCID: PMC9073678.
-<p> <a href="https://github.com/chen42/ratspub"> Source code </a>
+<p> <a href="https://git.genenetwork.org/genecup/">Source code </a>
{% endblock %}
-
-
diff --git a/templates/layout.html b/templates/layout.html
index 20dbcbe..814e5b6 100644
--- a/templates/layout.html
+++ b/templates/layout.html
@@ -4,7 +4,7 @@
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no">
<meta http-equiv="X-UA-Compatible" content="ie=edge">
-
+
<!-- Bootstrap CSS -->
<link rel="stylesheet" href="https://stackpath.bootstrapcdn.com/bootstrap/4.3.1/css/bootstrap.min.css" integrity="sha384-ggOyR0iXCbMQv3Xipma34MD+dH/1fQ784/j6cY/iJTQUOhcWr7x9JvoRxT2MZw1T" crossorigin="anonymous">
<script src="https://stackpath.bootstrapcdn.com/bootstrap/4.3.1/js/bootstrap.min.js" integrity="sha384-wfSDF2E50Y2D1uUdj0O3uMBJnjuUD4Ih7YwaYd1iqfktj0Uod8GCExl3Og8ifwB6" crossorigin="anonymous"></script>
@@ -20,7 +20,7 @@
<div class="col-1">
<a href="/"><div class='img'><img src="/static/white_logo.png" class="img-fluid", style="width:60%"></div></a>
</div>
-
+
<a class="navbar-brand" href="/">GeneCup</a>
<button class="navbar-toggler" type="button" data-toggle="collapse" data-target="#navbarSupportedContent" aria-controls="navbarSupportedContent" aria-expanded="false" aria-label="Toggle navigation">
<span class="navbar-toggler-icon"></span>
@@ -95,10 +95,17 @@
{% block content %}{% endblock %}
</div>
+</ hr>
+<div id="footer" align="right">
+ <a href="https://git.genenetwork.org/genecup/">Source code</a>
+ |
+ Cite <a href="https://academic.oup.com/g3journal/article/12/5/jkac059/6548160">GeneCup: mining PubMed and GWAS catalog for gene-keyword relationships. doi:10.1093/g3journal/jkac059. PMID: 35285473; PMCID: PMC9073678.</a>
+ |
+ Powered by Tensorflow on <a href="https://genenetwork.org/">GeneNetwork.org</a>
+</div>
+
<script src="https://code.jquery.com/jquery-3.2.1.slim.min.js" integrity="sha384-KJ3o2DKtIkvYIK3UENzmM7KCkRr/rE9/Qpg6aAZGJwFDMVNA/GpGFF93hXpG5KkN" crossorigin="anonymous"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/popper.js/1.12.9/umd/popper.min.js" integrity="sha384-ApNbgh9B+Y1QKtv3Rn7W3mgPxhU9K/ScQsAP7hUibX39j7fakFPskvXusvfa0b4Q" crossorigin="anonymous"></script>
<script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.0.0/js/bootstrap.min.js" integrity="sha384-JZR6Spejh4U02d8jOt6vLEHfe/JQGiRRSQQxSfFWpi1MquVdAyjUar5+76PVCmYl" crossorigin="anonymous"></script>
</body>
-
-