Frequently Asked Questions
- Output File:
Are there 3D pictures of proteins in the GeneCard?
Yes, there are hyperlinks to 3D pictures. They are found in the "Proteins" section under "3D Structures".
The (3D) and hyperlinks are shown next to each PDB identifier.
For example: the "Proteins" section in the BRCA1 GeneCard
How do gene and product specific links get incorporated into GeneCards?
Academicians who wish to collaborate and/or provide cross-links to and from GeneCards should fill out the User Feedback form.
Companies that wish to provide deep links to their products (e.g. reagents, assays, antibodies, clones, etc) in the Services and other relevant sections of GeneCards, should contact firstname.lastname@example.org.
How do I fill out a feedback form?
In the feedback form we want to hear anything you have to say about GeneCards (good or bad).
If you encountered a problem of some sort, try to elaborate as much as you can:
1. What were you searching for?
2. What did you expect to get, and what did you get in practice?
3. Do you have a suggestion as to what might have caused the problem?
4. Do you have any suggestions for improvement?
Your name and email are required in order for us to get back to you with the solution to your problem as soon as possible.
What does External Id mean?
An External Id is an id provided by a different database, and that may be different from the GeneCards Id.
Accessions from HGNC, EntrezGene, UniProt, and Ensembl are shown in the "Aliases & Descriptions" box (as External Ids), with links to the entries at the specific databases.
For example: the "Aliases & Descriptions" section in the MET GeneCard
Is the service provided by GeneCards free?
The service is provided free to academic non-profit institutions. All other users require a Commercial License from XenneX, Inc.
Unauthorized usage of this service is in breach of the terms and conditions of this web site, and may cause the user to incur fees for usage.
Which organisms are shown in GeneCards?
Although GeneCards is a database of human genes, we do currently supply mouse phenotypes and orthologs in our card.
Why isn't my article in GeneCards? How do I add it?
We do not do manual curation in GeneCards. Thus data regarding correlation of a GeneCard to articles is mined from several other sources. In order for an article to appear in GeneCards, it needs to be associated with a particular gene in one of our sources (more info). If you would like your paper to appear in GeneCards, please contact one of these sources.
Why is the section "Medical News" empty in some of the GeneCards?
Any valuable information found in the database regarding a certain gene is displayed in its GeneCard.
An empty section means "no valuable data was found in this section for this gene".
What types of output files are there, and how can I choose the type of file I want?
There are 2 types of output files: Excel and Notepad.
The default is an Excel output file (hence the .xls at the end of the file name).
In order to change the output file into a Notepad type of file, simply erase the .xls ending and replace it by .txt.
Excel output file: How do I divide the data of a single column into several columns?
Excel's Text to Columns found under Data in the Command Bar does just that.
By defining a separator character (in this case you should define the separator character as "|") Excel divides the data of a column into several columns.
For example: The aliases of the gene TP53 are printed in a single box in the output file under "Aliases" as: "P53 |p53 |LFS1 |TRP53".
By using Text to Columns, and defining "|" as the column separator, each alias is printed in a different column (now each alias would have a different box).
It is recommended that this tool be used only for the last column of the output file, otherwise some of the data in the following columns might get "runover".
What does "You have 100 more genes to retrieve today" mean?
A user has a quota of 100 genes to retrieve each day. This quota is set to a 100 at the beginning of each day, independent of the number of genes retrieved in the past.
When trying to retrieve a larger amount of genes than allowed, data would be given only for the amount allowed, and a comment at the end of the output file would state that you have exceeded your limit.
If you require a larger daily quota of genes to retrieve, contact email@example.com.
How to associate a list of genes with their synonyms and correlated disease?
It can be done with our tool for extracting information from many genes at once GeneALaCart
which accepts a list (batch) of gene symbols or identifiers together with the user's data fields of interest (e.g. aliases, disorders, proteins, etc.), and produces a tabulated file of annotations for the gene set. GeneALaCart is free for academic use but requires registration.