TM0005 Annotations

1. ggKBase is a service designed to assist in analyzing and integrating *omic data (e.g. metagenomics, proteomics, etc). The source code for ggKBase will be made available as an open source project.
2. You are encouraged to contact the development staff with issues related to usage of ggKBase. The ggKBase development staff as well as the members of the Banfield lab at the University of California, Berkeley, are not available to support outside research/computation requests.
3. We aim to make ggKBase the best resource possible and to make it accurate and available at all times; however, we cannot guarantee the correctness of any results, validity or integrity of the data, or the availability of the service: We cannot be held responsible for decisions made, losses suffered, or damages that resulted from using data from ggKBase.
4. We respect our user’s privacy and will not share any user registration details with anyone other than the ggKBase developers.
5. ggKBase is a social web site – it has mechanisms to share results and comments with other users of the system. As a registered user of ggKBase, you agree to respect the rights of other users and conduct yourself in a professional manner with courtesy and collegiality towards your fellow users. We reserve the right to delete users found not upholding these standards.
6. We reserve the right to reject inappropriate data submissions. As a User, you agree not to submit data that is not your own and you agree that any data you do submit is being submitted specifically for the purposes of analyzing using ggKBase.
7. ggKBase and its underlying servers and systems are properly administrated and backed up. However, ggKBase is not responsible for data loss or work loss as a result of system or hardware failures or criminal activity.
8. We reserve the right to perform additional data analysis to improve ggKBase, and we will not release user-contributed data without consent of the user.
9. Users of ggKBase are expected to properly cite any published work.
10. We reserve the right at any time to modify the Terms of Service for ggKBase. Modifications to these Terms will be effective immediately and we will make a reasonable effort to contact users via email of any changes. If you continue using ggKBase after an amendment to the Terms of Service, we assume you have read and accepted the changes.

The search box searches a snapshot of the information in the database and does not support wild cards (e.g., '*' or '%').

You can search by gene name as follows:

• full gene name: UBA_LeptoII_Scaffold_8241_GENE_539
• contig/scaffold abbreviated: UBA_LeptoII_Scaff_8241_GENE_539 (or "cont" for contig)
• locus_id: UBAL2_82410539
• just scaffold or contig and a number: 8241_539
• organism and scaffold/contig and number: LeptoII_8241_539

You can also search by annotation - you can enter any word that might be found in the annotation fields. If the annotation for a gene is Ferredoxin oxidoreductase gamma subunit 517295:517993 forward MW:25534 you would get hits for any word:

• Ferredoxin
• oxidoreductase
• gamma
• subunit
• 517295:517993
• forward
• MW:25534

Any combinations of the above words work as well:

• oxidoreductase gamma subunit

Finally, you can add in the organism name as well. To only find those oxidoreductases from A-plasma, you might search for either of these:

• aplasma oxidoreductase
• apl oxidoreductase