Comments on: Epitopes and Microsoft Computational Biology http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/ Meddling with things mankind is not meant to understand. Also, pictures of my kids Sat, 13 Mar 2010 09:59:29 +0000 http://wordpress.org/?v=2.9.2 hourly 1 By: Sebastin http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/comment-page-1/#comment-10840 Sebastin Fri, 12 Dec 2008 07:28:01 +0000 http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/#comment-10840 can you help list some new online epitope prediction tools or link us or post a new post on this. Much appreciated! can you help list some new online epitope prediction tools or link us or post a new post on this. Much appreciated!

]]> By: Mystery Rays from Outer Space - Meddling with things mankind is not meant to understand. Also, pictures of my kids » Epitope prediction: The seven percent solution http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/comment-page-1/#comment-109 Mystery Rays from Outer Space - Meddling with things mankind is not meant to understand. Also, pictures of my kids » Epitope prediction: The seven percent solution Fri, 28 Sep 2007 03:16:23 +0000 http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/#comment-109 [...] prediction: The seven percent solution By iayork I’ve talked several times (for example, here, here, and here) about predicting cytotoxic T lymphocyte (CTL) epitopes, and emphasized how hard it [...] [...] prediction: The seven percent solution By iayork I’ve talked several times (for example, here, here, and here) about predicting cytotoxic T lymphocyte (CTL) epitopes, and emphasized how hard it [...]

]]> By: Mystery Rays from Outer Space - Meddling with things mankind is not meant to understand. Also, pictures of my kids » Epitope prediction: The bad and the ugly http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/comment-page-1/#comment-57 Mystery Rays from Outer Space - Meddling with things mankind is not meant to understand. Also, pictures of my kids » Epitope prediction: The bad and the ugly Thu, 23 Aug 2007 17:59:54 +0000 http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/#comment-57 [...] prediction: The bad and the ugly By iayork When I was talking about Microsoft’s epitope prediction software, and when I discussed Kotturi’s update on LCMV [...] [...] prediction: The bad and the ugly By iayork When I was talking about Microsoft’s epitope prediction software, and when I discussed Kotturi’s update on LCMV [...]

]]> By: iayork http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/comment-page-1/#comment-28 iayork Wed, 01 Aug 2007 19:38:24 +0000 http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/#comment-28 You're right, it's gag/pol, not nef. I didn't note down the accession number at the time. From my databases it could have been any of P03366 P05959 P04585 P03368 P05961 P35963 P12499 K02013 The last (K02013, Human immunodeficiency virus type 1, isolate BRU, complete genome (LAV-1)) is the most likely, because all the rest specifically say "Gag-Pol polyprotein (Pr160Gag-Pol)". I think I grabbed the sequence and was in too much rush when I tried to work out which protein I was dealing with. You’re right, it’s gag/pol, not nef.

I didn’t note down the accession number at the time. From my databases it could have been any of
P03366
P05959
P04585
P03368
P05961
P35963
P12499
K02013

The last (K02013, Human immunodeficiency virus type 1, isolate BRU, complete genome (LAV-1)) is the most likely, because all the rest specifically say “Gag-Pol polyprotein (Pr160Gag-Pol)”. I think I grabbed the sequence and was in too much rush when I tried to work out which protein I was dealing with.

]]> By: suicyte http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/comment-page-1/#comment-27 suicyte Wed, 01 Aug 2007 15:56:30 +0000 http://www.iayork.com/MysteryRays/2007/06/14/epitopes-and-microsoft-computational-biology/#comment-27 Ian, are you sure that your test peptides come from a Nef protein? I am no expert, but they seem to be derived from a Gag-Pol instead. Maybe you could post the Accession number of your input protein, this would make it easier to compare your results with another method. Thanks! Ian, are you sure that your test peptides come from a Nef protein? I am no expert, but they seem to be derived from a Gag-Pol instead.
Maybe you could post the Accession number of your input protein, this would make it easier to compare your results with another method.
Thanks!

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