From Chemistry to bioinformatics

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Presentation transcript:

From Chemistry to bioinformatics Systems Biology for Translational Medicine Prospective Project Partnership Meeting From Chemistry to bioinformatics Osman Doluca Department of Biomedical Engineering

Field of Study / Technical Experience Keywords: Structural biology: fluorescence/FRET, CD spectrometry, Mass spec., NMR Chemical modifications of oligonucleotides: chemical synthesis of DNA/RNA primers Bioinformatics: programming using Python phylogenetic analysis prediction of motifs on the genome Proteins: site-directed mutagenesis of proteins 10 L scale bioreactor processing enzyme production and characterization

Projects PhD study:an oligonucleotide story 1. controlling stability of G-quadruplex DNA structures using DNA modification

Projects PhD study:an oligonucleotide story 2. synthesis of triple helical DNA forming probes

Projects PhD study: an oligonucleotide story 3. AFENA (Assembly-dependent Fluorescently Enhancing Nucleic Acid)

Projects PhD study: an oligonucleotide story

Projects Bioinformatics: Prediction of G-quadruplex structures using genomic data

Projects Bioinformatics: Prediction of G-quadruplex structures using genomic data

Ongoing Projects Bioinformatics: P53 gene has 20 copies in long-living, low cancer prevalence elephants while humans have only 1. Is this a evolutionary response to big body size? How can we investigate relationship of copy numbers of other 15.000 genes vs cancer rate, longevity and body size? pyCOPP, Python Counter for Orthologous and Paralogous Proteins

Project Idea / Contribution Fields List of the fields you may participate and/or techniques you may offer: Oligonucleotide synthesis / Primer synthesis; Design and synthesis of Fluorescent DNA probes for mRNA/miRNA/genomic DNA etc. for FISH/qPCR; Structural analysis of biomolecules using CD-spectro, UV melting, Mass spectro, NMR, FTIR; Protein engineering and production; enzyme characterization Python programming for automated genome analysis

Contact Details Osman Doluca Department of Biomedical Engineering Osman.Doluca@ieu.edu.tr homes.ieu.edu.tr/odoluca/