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 (ASI)  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. M. Obermeier 4/2010

Workflow sequences mutation-lists identify genes alignment on Consensus send sequences B Sequence to geno2pheno extraction of mutations rule-based analysis geno2pheno report detailled output batch output M. Obermeier 4/2010

Sequences analysed with HIV-GRADE 2000 1800 Number of Sequences 1600 1400 1200 1000 800 600 400 200 0 Apr Mai Jun Jul Aug Sep Okt Nov Dez Jan Feb Mrz 09 09 09 09 09 09 09 09 09 10 10 10 Month M. Obermeier 4/2010

M. Obermeier 4/2010 Data traffic by countries

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  M. Obermeier 4/2010

M. Obermeier 4/2010 Combination analysis

M. Obermeier 4/2010 HIV-2 tool

M. Obermeier 4/2010 HIV-2 tool

HBV-tool Program code  clean-up Direct link to  geno2pheno- HBV 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  M. Obermeier 4/2010

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 