Introduction to Computational Chemical Biology Dr. Raimo Franke
[email protected] Lecture Series Chemical Biology http://www.raimofranke.de/ Leibniz-Universität Hannover Where can you find me? • Dr. Raimo Franke Department of Chemical Biology (C-Building) Helmholtz Centre for Infection Research Inhoffenstr. 7, 38124 Braunschweig Tel.: 0531-6181-3415 Email:
[email protected] Download of lecture slides: www.raimofranke.de • Research Topics - Metabolomics - Biostatistical Data Analysis of omics experiments (NGS (genome, RNAseq), Arrays, Metabolomics, Profiling) - Phenotypic Profiling of bioactive compounds with impedance measurements (xCelligence) (Peptide Synthesis, ABPP) I am looking for BSc, MSc and PhD students, feel free to contact me! Slide 2 | My journey… Slide 3 | Outline Primer on Statistical Methods Multi-parameter phenotypic profiling: using cellular effects to characterize bioactive compounds Network Pharmacology, Modeling of Signal Transduction Networks Paper Presentations: Proc Natl Acad Sci U S A. 2013 Feb 5;110(6):2336-41. doi: 10.1073/pnas.1218524110. Epub 2013 Jan 22. Antimicrobial drug resistance affects broad changes in metabolomic phenotype in addition to secondary metabolism. Derewacz DK, Goodwin CR, McNees CR, McLean JA, Bachmann BO. Slide 4 | Chemical Biology Arsenal of Methods In silico Target interactions Correlation signals Chemical Genetics & predictions Chemoproteomics Pharmacophore Biochemical assays Expression profiling Protein microarrays –based target SPR, ITC Proteomics Yeast-3-Hybrid prediction X-Ray, NMR Metabonomics Phage display Image analysis ABPP Impedance Affinity pulldown NCI60 panel Chemical probes Computational Methods in Chemical Biology • In silico –based target prediction: use molecular descriptors for in silico screening, molecular docking etc. (typical applications of Cheminformatics) • Biochemical Assays: SPR: curve fitting to determine kass und kdiss, Xray: model fitting, NMR: chemical shift prediction etc.