HIV Sequence Database
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Programs and Tools
Search Interface retrieves HIV and SIV sequences, which can then be aligned and used to build trees Geography Search Interface retrieves HIV sequences based on geographical distribution Tools for working with sequences a complete list of our online tools, organized by function Alignments
HIV Premade Alignments includes Consensus and Ancestral Sequences, Subtype Reference Alignments (for use in trees, subtyping, and recombination analysis), and Complete Alignments (based on all sequences in the database) |
Information
HIV Sequence Compendia print or order a copy of our annual compendium and review articles Tutorials and other information unpublished web-based content posted on this site Links to other HIV/AIDS tools and information About this website
FAQ questions and answers that give general information about this website How to Cite this Database explains how to refer to this database in publications |
Geographic distribution of search results
With this new feature of our main search interface, you can display the results of your sequence search as a map,
with pies to display the geographical origins of the sequences.
Use the 'Geography' button on the search results page.
12 June 2009
ResDB is no longer available
Due to hardware failure we have had to take down
the resistance mutation database. The data can
still be downloaded from the site, as tab-delimited files.
The entire website can also be downloaded, so you can
locally restore the database. It requires MacOS9 and Filemaker Pro.
11 June 2009
Emails to China
Some email addresses in China appear to be unreachable from our server. One example is 163.com,
but there are others. A temporary solution is to use a non-Chinese email address
(gmail, yahoo, etc) instead. We are trying to solve the problem.
09 June 2009
HIV Sequence Compendium 2009
HIV Sequence Compendium 2009 is now available on-line.
The printed copy is at the printers and should begin shipping in a few
weeks.
22 May 2009
Sequence histograms
The output page of the HIV sequence Search Interface offers a new option, "Make Histogram". This option shows the distribution of your sequences across the HIV genome. At each position across the graph, the number of sequences overlapping that position is plotted as a bar. Colors within the bars represent different subtypes. The histogram allows you to see at a glance what regions and what subtypes are represented in your output.
08 April 2009
Better names for downloaded sequences
The search interface now gives the option of customizing the names of downloaded sequences.
After clicking the "download sequences" button on the search results, click the "compose a label" link
and choose the database fields to make up the sequence labels. This makes it possible to save some or all of
the search information in the sequence names. 07 April 2009
