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useful_tools_for_functional_and_pathway_analysis [2021/11/19 15:48] – [Useful tools for functional and pathway analysis] adminuseful_tools_for_functional_and_pathway_analysis [2024/03/28 15:32] (current) – [Useful tools for functional and pathway analysis and target identification] admin
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-===== Useful tools for functional and pathway analysis =====+===== Useful tools for functional and pathway analysis and target identification =====
  
 +If you have a list of genes, and you want to know their functions, the diseases and pathways they might be associated with, and some known or candidate drug targets for them, you can use the following tools and databases. Your gene list might have been obtained from differential expression or other omics analyses, gene network analysis, a genome-wide association study ([[https://en.wikipedia.org/wiki/Genome-wide_association_study|GWAS]]), and alike.
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 +  * [[https://agora.adknowledgeportal.org/|Agora]] hosts evidence for association of genes with Alzheimer's disease (AD) and includes over 600 potential drug [[https://agora.adknowledgeportal.org/genes/nominated-targets|targets]] for AD.
 +  * Functional genomics repository ([[https://tf.lisanwanglab.org/FILER/|FILER]]) and Alzheimer’s Disease Variants Portal ([[https://advp.niagads.org/|ADVP]]) are functional genomics database with harmonized, extensible, indexed, searchable human functional genomics data collected from 20 data sources and 80 cohorts, respectively.
   * [[http://www.humanmine.org/%20|Humanmine ]] : given a list of genes as input (Entrez/Ensembl/Symbol or a mix), it returns interaction networks, pathways, Gene Ontology categories, relevant literature, protein domains, chromosome distributions and much more on a single page. There are also nice summaries that pop-up by hovering the mouse over a gene name.   * [[http://www.humanmine.org/%20|Humanmine ]] : given a list of genes as input (Entrez/Ensembl/Symbol or a mix), it returns interaction networks, pathways, Gene Ontology categories, relevant literature, protein domains, chromosome distributions and much more on a single page. There are also nice summaries that pop-up by hovering the mouse over a gene name.