SLIDE 1
- M. Obermeier 4/2010
- M. Obermeier 4/2010
Update 2010 and outlook Basis of the HIV-GRADE internet-tool - - PDF document
Update 2010 and outlook Basis of the HIV-GRADE internet-tool - - PDF document
M. Obermeier 4/2010 Update 2010 and outlook Basis of the HIV-GRADE internet-tool HIV-Alg module from Stanford-HIVdb PERL-source-code is freely available Software is in development since 1999 Algorithm Specification Interface
SLIDE 2
SLIDE 3
- M. Obermeier 4/2010
Algorithm Specification Interface (ASI)
Rule-based algorithms can be described using xml-syntax
Xml-Files available for Stanford- HIVdb, ANRS and REGA HIV-GRADE can be described in a compatible format.
SLIDE 4
- M. Obermeier 4/2010
send sequences to geno2pheno
geno2pheno report
Workflow
sequences mutation-lists
identify genes alignment on Consensus B Sequence extraction of mutations
rule-based analysis detailled output batch output
SLIDE 5
- M. Obermeier 4/2010
Sequences analysed with HIV-GRADE
200 400 600 800 1000 1200 1400 1600 1800 2000 Apr 09 Mai 09 Jun 09 Jul 09 Aug 09 Sep 09 Okt 09 Nov 09 Dez 09 Jan 10 Feb 10 Mrz 10 Month Number of Sequences
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- M. Obermeier 4/2010
Data traffic by countries
SLIDE 7
- M. Obermeier 4/2010
Active drug score (ADS)
transformation of a qualitative statement into a quantitative factor
Resistant => 0
Intermediate => 0.33
limited susceptibility => 0.66
Susceptible => 1
Hypersusceptible => 1.33
Sum of all given drugs
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- M. Obermeier 4/2010
Combination analysis
SLIDE 9
- M. Obermeier 4/2010
HIV-2 tool
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- M. Obermeier 4/2010
HIV-2 tool
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- M. Obermeier 4/2010
HBV-tool
Program code clean-up
Direct link to geno2pheno- HBV
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- M. Obermeier 4/2010
Outlook
HIV-GRADE HCV tool
HIV-GRADE V3 tool
Mutation analyses and simple entry of V3-loop sequences into tropism classification tools
More combination analysis
SLIDE 13
HIV-GRADE association
Thomas Berg, Medizinisches Labor Dr. Berg, Berlin
Patrick Braun, PZB, Aachen
Martin Däumer, Labor Dr. Thiele Kaiserslautern
Josef Eberle, Pettenkofer-Institut, München
Robert Ehret, PZB, Aachen
Rolf Kaiser, Institut für Virologie, Köln
Klaus Korn, NRZ für Retroviren, Erlangen
Claudia Kücherer, RKI, Berlin
Harm Müller, Labor Dr.Fenner, Hamburg
Christian Noah, Labor Lademannbogen, Hamburg
Martin Obermeier, Medizinisches Labor Dr. Berg, Berlin
Alexander Thielen, MPI, Saarbrücken
Martin Stürmer, Institut für Medizinische Virologie, Frankfurt
Hauke Walter, NRZ für Retroviren, Erlangen
Eva Wolf, MUC research, Munich