Search form

This application provides data about gene variability during primate evolution, including the human lineage.

In order to get data about the genes you are interested in, you will have to provide names or Entrez identifiers in the search form. The results are given for the longest consensus coding sequence (CCDS) of the gene.

Type the list of gene names or Entrez IDs or both. This input is case-insensitive so you don't have to worry about the Upper/lowercase. Moreover, you don't need to enter the exact gene names every genes matching the names you entered will be found.

For example, typing SHANK will match SHANK 1, SHANK 2 and SHANK 3. You will then be able to filter the exact genes you want in the list on the side menu, or simply by using the Exact match parameter.

There are few other inputs and parameters you can set to get the data you want:

• Gene lists: choose here a preset list of genes with expression specific to body parts such as organs/tissues or brain structures, functions, diseases or evolution. This is useful when you don't know exactly which genes you want to explore or if you want a global visualization of a set of genes with specific expression to an organ/tissue. Just click on the input, choose the list you want, and the name should appear in the main input. Then click on the search button. You can combine a lists and simple gene names.
• Exact match: use this parameter if you want the genes that are called exactly like the names you entered.
• Only 1-to-1 orthologs: uncheck this parameter if you want to also display genes that are not one-to-one orthologs between Homo sapiens and other primates. See this page for more information. Be careful: the dN/dS of genes with other homology types than one-to-one ortholog can be subject to bias.
• Quality: set the level of quality coverage for the genes.
  • Low: genes with a coverage superior to 20% of the CDS.
  • Medium: genes with a coverage superior to 50% of the CDS.
  • High: genes with a coverage superior to 80% of the CDS.
• Allele frequency: the pN/pS was calculated for different single nucleotide polymorphisms (SNP) allele frequency in the population.
  • MAF < 1%: present only in less than 1% of the population.
  • MAF < 5%: present only in less than 5% of the population.
  • All: no filter for the MAF.

You can then send a request by clicking the Search button or erase the form by clicking Reset.

You can download the raw data of the graphs as a single CSV file by clicking on the download button.

The list of genes found will be displayed in the side menu on the left and their data will be displayed in the graphs on the main page.