Interpreting a Genes and Markers Summary
This Help document answers the following questions about the genes and markers summary:
- What determines the content of this report?
- What should the summary report contain?
- Can I edit my original options and requery?
- How do I sort my results?
- How do I retrieve my results as tab-delimited text or spreadsheet files?
- Can I forward my results to batch queries?
See also:
What determines the content of this report?
The marker summary content depends on how you filled out the fields on the Genes and Markers Query Form.
What should the summary report contain?
- At the top of the Genes and Markers Query Results - Summary report is a display of your query parameters. For example:
- You searched for...
- on Chromosome: any of [2]
- AND Genome Coordinates: 4.4 -10.9 Mbp
- AND Feature Type: any of [protein coding gene, miRNA gene]
- Above the summary is an option to change your parameters. Use Click to modify search to view to the Genes and Markers Query Form with your previous search parameters.
- To the far right of the search summary is information about the amount of data found. For example:
Showing markers 1 - 100 of 153.
By default, 100 items are displayed on the web page. You can use the toggle to change the number of items displayed or page through the results. - Beneath the statement are the following columns, with a row for each matching item.
Field Description Genetic Location If known, the chromosome and centimorgan position to which the marker is assigned. Centimorgan positions for genes and markers in MGI are based on linear interpolation using the standard genetic map described in Cox et al. (2009) (PubMed ID). Markers without genome coordinates cannot be assigned specific cM locations and are designated as syntenic. Genome Coordinates (strand) Marker's coordinates on the mouse genome assembly sequence map, and the strand location of the coordinates in parentheses. Plus (+) is = 5' to 3'. Minus (-) is 3' to 5'. Feature Type Marker categories resulting from your selection(s) on the query form. For example, if you clicked Non-coding RNA gene, results for rRNA, tRNA, snRNA, snoRNA, or miRNA genes may appear. See Genome Feature Type Definitions for a complete list of Feature Types used in MGI and their definitions. Symbol Marker symbol and name, linked to the MGI marker detail page.
Can I edit my original options and requery?
Yes, you can.
If you want to edit a list or change output options:
- When your results appear, click the banner at the top of the page (Click to modify search). (The banner title changes to Click to hide search.) The window that appears contains your original search criteria.
- Make your changes.
- Click Search.
- Repeat until the desired results appear.
- You can requery as many times as you like.
- Alternatively, click Reset to return to the original Genes and Markers Query form.
- See Using the Genes and Markers Query Form
How do I sort my results?
Click on the Genome Coordinates, Feature Types or Symbol column headings or the up/down arrowheads ( ▼ ▲) to change or reverse the sort order of your results.
How do I retrieve my results as tab-delimited text or spreadsheet files?
Above the table of your search results, click on the Text File or Excel File icon. Your web browser will download a file of the results.
Can I forward my results to batch queries?
Yes, you can.
Above the table of your search results, click on the Batch Query or MouseMine icons. The Batch Query will allow you to easily associate GO, phenotype and expression data to your list of results and MouseMine offers flexible querying, numerous predefined query templates, iterative refinement of results, and built-in enrichment analysis.