<table cellspacing="0" cellpadding="0" border="0" ><tr><td valign="top" style="font: inherit;">Hi Dave,<br>Thanks for the reply. <br>Yes you're right in that the virus genomes are too many in number and are also segmented. So each Influenza virus is made up of 8 segments, We have over 76,000 segment sequences for Influenza and would like to be able to view each of these in GBrowse. Right now we have concatenated all 8 segments of a few selected viruses and display them as a complete sequence. It's hard to do the same for all the remaining ones. So I was trying to figure out if GBrowse can display segmented genomes and in so many numbers. Thanks again.<br><br><div><span style="font-size: 10pt; color: navy; font-family: 'Book Antiqua';">Even the word "Impossible" says "I m Possible" and "Prayer" tagged with"Faith" makes all things possible !</span></div><br><br>--- On <b>Tue, 6/2/09, Dave Clements, GMOD Help Desk
<i><gmodhelp@googlemail.com></i></b> wrote:<br><blockquote style="border-left: 2px solid rgb(16, 16, 255); margin-left: 5px; padding-left: 5px;"><br>From: Dave Clements, GMOD Help Desk <gmodhelp@googlemail.com><br>Subject: Re: [Gmod-gbrowse] GBrowse for Viral genomes<br>To: "jo sequeira" <jolovesjo@yahoo.com><br>Cc: gmod-gbrowse@lists.sourceforge.net<br>Date: Tuesday, June 2, 2009, 9:39 AM<br><br><div class="plainMail">Hi Jo,<br><br>I don't have enough knowledge of viral genomics to fully understand<br>your question, but I think I get the gist of it.<br><br>GBrowse can display anything from high quality reference genomes to<br>unmapped EST collections. What changes between the two is how you<br>search for the data. If you have 20 well defined chromosomes, you can<br>have a pull-down listing all chromosomes. If you have 10,000 ESTs a<br>pull down won't work and you have to access the data via name<br>searching, BLAST,
or from external links (e.g., an EST page).<br><br>I'm guessing that viral sequences are more like the EST case then the<br>reference case.<br><br>Hope this helps,<br><br>Dave C<br><br><br>On Mon, Jun 1, 2009 at 7:31 AM, jo sequeira <<a ymailto="mailto:jolovesjo@yahoo.com" href="/mc/compose?to=jolovesjo@yahoo.com">jolovesjo@yahoo.com</a>> wrote:<br>> Is it possible to view large number of virus sequences on GBrowse. Since<br>> viral genomes can be segmented and have fewer proteins but several<br>> thousand's of sequences, (unlike bacterial genomes that can have thousands<br>> of genes and fewer genomes), can GBrowse handle those numbers of viral<br>> genomes?<br>> Thanks<br>><br>> Even the word "Impossible" says "I m Possible" and "Prayer" tagged<br>> with"Faith" makes all things possible !<br>><br>> ------------------------------------------------------------------------------<br>> Register Now
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