From fd0d852cc46ae5e23341358682e7d8e682c81414 Mon Sep 17 00:00:00 2001 From: Pjotr Prins Date: Sat, 22 Jun 2024 04:27:44 -0500 Subject: Add footer and version info --- templates/about.html | 36 +++++++++++++++++------------------- templates/layout.html | 15 +++++++++++---- 2 files changed, 28 insertions(+), 23 deletions(-) (limited to 'templates') 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 @@

About GeneCup

-

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 - local archive of the PubMed. - 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 +

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 + local archive of the PubMed. + 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. -

A list of curated addiction-related keywords 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 Addiction Genes 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. +

A list of curated addiction-related keywords 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 Addiction Genes 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. - +

We plan to update the local PubMed archive daily and the EBI GWAS catalog quarterly. @@ -37,9 +37,7 @@ Cite: Gunturkun MH, Flashner E, Wang T, Mulligan MK, Williams RW, Prins P, Chen H. GeneCup: mining PubMed and GWAS catalog for gene-keyword relationships. G3 (Bethesda). 2022 May 6;12(5):jkac059. doi: 10.1093/g3journal/jkac059. PMID: 35285473; PMCID: PMC9073678. -

Source code +

Source code {% 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 @@ - + @@ -20,7 +20,7 @@

- + GeneCup