Data Storage System
HIVbase puts an enterprise level database right on your desktop. This data system provides you with a strong, resilient storage system that understands the context of the viral genome! Storing your data in text files and folders is an invitation for disaster. Give your data the safety and guaranteed reproducability it deserves!

Data Import Tools
HIVbase can import nucleic acid and amino acid data individually or from large FASTA-formatted files. You can import 1000's of sequences at a time, automatically identifying proteins and motifs they contain.

Protein Identification Tool
Our protein identification tool quickly screens all your sequences during an import to see what proteins and motifs they contain. GJI professionals can also custom-design the protein identification tool for users studying emerging variants.

Sequence Annotation Tool
Annotations are additional pieces of information associated with your sequences. For example, you might record patient id codes, tissue types, sequence dates, sample locations, or PI names that you want to have associated with the sequence itself. In many cases, this contextual information is as valuable as the sequence itself. The HIVbase annotation editor allows you to create custom, user-defined annotations that will be attached to your sequence data for reference.

Query Data
The query tool allows users to isolate individual sequences or population sets that match user-defined genetic characteristics or sequence annotations. This allows the scientist to quickly probe their data sets using their own criteria. For example, to count the number of prolines in the HIV envelope C4 domain, the query tool runs a set of algorithms to identify all of the qualifying sequences, i.e. those that have a complete C4 domain, and associates the number of C4 prolines as a characteristic of each sequence, respectively. The user can then choose to save these annotations, now permanently associated to the sequence, for future queries.

User Defined Functions
HIVbase allows a user to define her own functions to identify useful information about the sequence data in the database. A user can select to see counts of certain patterns, find out if a particular Amino Acid or pattern of Amino Acids exists in a sequence or return the position within a sequence where a particular pattern is found.

Export query results
HIVbase is also designed to export user-defined genetic data sets and query results into standard formats that can be used by other analysis programs and software applications such as Microsoft Word, Excel, SAS, or any of the alignment applications. Exporting data in FASTA format accommodates most other analyitic applications, while exporting data in Excel format allows the user to export all of the data fields listed in your query.