Alexander Kanitz

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==Contact Information==
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==Contact information==
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[[Image:Alex.JPG|150px|right]]
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[[Image:Alex.JPG|120px|right]]
*ETH Zurich<br/>
*ETH Zurich<br/>
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*Email: [mailto:alexander.kanitz@pharma.ethz.ch alexander.kanitz@pharma.ethz.ch]
*Email: [mailto:alexander.kanitz@pharma.ethz.ch alexander.kanitz@pharma.ethz.ch]
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==Education==
 
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December 2011&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Doctor of Philosophy (Ph.D.), Swiss Federal Institute of Technology (ETH), Zurich, Switzerland
 
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Nov 2007 – Dec 2011&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Graduate studies in Pharmaceutical Sciences, Institute of Pharmaceutical Sciences, Swiss Federal Institute of Technology (ETH), Zurich, Switzerland
 
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Nov 2007 – Dec 2011&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Graduate studies in Molecular Life Sciences, Life Science Zurich Graduate School, Zurich, Switzerland
 
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March 2007&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Master of Science (M.Sc.), University of Amsterdam, The Netherlands
 
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Oct 2004 – Mar 2007&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Undergraduate studies in Medical Biochemistry, Faculty of Science, University of Amsterdam, The Netherlands
 
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July 2004&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Bachelor of Science (B.Sc.), Technical University of Munich, Germany
 
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Sep 2001 – Jul 2004&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Undergraduate studies in Molecular Biotechnology, Institute of Biological Chemistry, Technical University of Munich, Germany
 
==Research interests==
==Research interests==
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<!-- Feel free to add brief descriptions to your research interests as well -->
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*Gene regulatory networks
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I am interested in post-transcriptional regulatory networks, particularly the regulation of mRNA translation, localization and stability by RNA-binding proteins and non-coding RNAs. In our lab we are studying the dynamics of mRNPs in yeast and human cell lines, and we hope that our work will contribute to the deciphering of the "mRNP code".
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*Laboratory automation / informatics ("Science 2.0")
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*Synthetic biology
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==Current position==
==Current position==
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I am a grad student in the [http://gerber.openwetware.org/ Gerber Lab] at the ETH Zurich, working on post-transcriptional gene regulation, and was recruited through the [http://www.lifescience-graduateschool.ch/index.php?id=17 Molecular Life Sciences] program of the [http://www.lifescience-graduateschool.ch/ Life Science Zurich Graduate School].<br/><br/>
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'''I am currently looking for a post-doc position''' that allows me to apply and further develop my bioinformatics skills, ideally for the description of gene regulatory networks or the development of lab automation software/services.
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Tentative title of the project: ''[[Gerber:Projects|"Systematic Analysis of the Crosstalk between Regulatory RNA-Binding Proteins and the MicroRNA Machinery"]]''.<br/><br/>
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I am an initiator of the [http://www.rna.ethz.ch/ RNA Club Zurich] and the (currently defunct) Zurich-based "Web Utilities and Software Seminar". Furthermore I maintain the web presence of the [http://gerber.openwetware.org/ Gerber Lab] (currently moving to the UK).
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==Previous labs==
 
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*2006 - [http://www.imcb.a-star.edu.sg/php/vinayt.php Tergaonkar Lab], [http://www.imcb.a-star.edu.sg/php/main.php Institute of Molecular and Cell Biology], Biopolis, Singapore: ''"Characterization of a Putative IKK2 in Danio rerio"'' / Supervisor: Prof. Vinay Tergaonkar
 
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*2004-2005 - Seppen Lab, [http://www.livercenter.nl/ AMC Liver Center], University of Amsterdam, The Netherlands: ''"Lentiviral Gene Transfer of Chemically Inducible Hepatocyte Growth Factor Receptor and Liver Re-Targeting of Lentiviral Particles"'' / Supervisors: Dr. Jurgen Seppen, Prof. Ronald P.J. Oude-Elferink
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==Research experience==
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'''11-2007 – 12-2011'''<br/>
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'''Pharmacogenomics Unit, Institute of Pharmaceutical Sciences, ETH Zurich, Switzerland'''<br/>
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Supervision: Prof. Dr. André Gerber, Prof. Dr. Michael Detmar<br/>
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Project title: “Tools and strategies for the unraveling of post-transcriptional gene regulatory networks”<br/><br/>
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'''12-2006 – 02-2007'''<br/>
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'''Swammerdam Institute of Life Sciences, University of Amsterdam, The Netherlands'''<br/>
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Supervision: Prof. Dr. Stanley Brul, Dr. Hans van der Spek<br/>
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Project title: “Status, complications and future prospects of highly active antiretroviral therapy”<br/><br/>
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'''02-2006 – 07-2006'''<br/>
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'''Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore'''<br/>
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Supervision: Prof. Dr. Vinay Tergaonkar<br/>
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Project title: “Characterization of a putative IKK2 in Danio Rerio”<br/><br/>
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'''10-2004 – 09-2005'''<br/>
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'''Department of Hepatology, Academic Medical Center, University of Amsterdam, The Netherlands'''<br/>
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Supervision: Prof. Dr. Jurgen Seppen<br/>
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Project titles: ”Lentiviral gene transfer of chemically inducible hepatocyte growth factor receptor” and “Liver re-targeting of lentiviral particles”<br/><br/>
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'''03-2004 – 07-2004'''<br/>
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'''Institute of Biological Chemistry, Technical University of Munich, Germany'''<br/>
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Supervision: Prof. Dr. Arne Skerra, Dr. habil. Ingo Korndörfer<br/>
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Project title: ”Production and characterization of the enzymatically active domain of the endolysine Ply500 isolated from Listeria monocytogenes bacteriophage A 500”<br/><br/>
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'''08-2003 – 10-2003 & 07-2004 – 08-2004'''<br/>
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'''Traineeships Research and Development at Micromet, Inc., Munich, Germany'''
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==Acquired skills==
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Experienced with transcriptomics (microarray) and proteomics (mass spectrometry) techniques as well as standard biochemical, molecular and cell biological techniques (cell culturing, cloning, Western/Northern blotting, immunopurification, qPCR, FACS, immunofluorescence, in vitro enzymatic and binding assays); used model systems: human cell lines, zebrafish, E. coli, P. pastoris, lentiviral vectors; profound knowledge of statistical and bioinformatics-based analytical methods (intermediate to advanced knowledge of Perl); highly developed scientific writing, data preparation, presentation and publication skills
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*2004 - [http://www.lrz-muenchen.de/~Biologische-Chemie/ Skerra Lab], [http://www.lrz-muenchen.de/~Biologische-Chemie/ Institute of Biological Chemistry], Technical University of Munich, Germany: ''"Production and characterization of the enzymatically active domain of the endolysine Ply500 isolated from Listeria monocytogenes-bacteriophage A 500"'' / Supervisors: Dr. Ingo P. Korndörfer, Prof. Arne Skerra
 
==Education==
==Education==
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<!--Include info about your educational background-->
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'''Molecular Life Sciences''', Ph.D., ETH Zurich, Switzerland (December 2011)<br/>
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*since 2007: PhD student, [http://www.lifescience-graduateschool.ch/index.php?id=17 Life Science Zurich Graduate School], [http://www.ethz.ch/index_EN ETH Zurich]
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'''Medical Biochemistry''', M.Sc., University of Amsterdam, The Netherlands (March 2007)<br/>
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*2004-2007: [http://www.studeren.uva.nl/msc_medical_biochemistry MSc Medical Biochemistry], [http://www.uva.nl/start.cfm/la=en/th=main University of Amsterdam]
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'''Molecular Biotechnology''', B.Sc., Technical University of Munich, Germany (July 2004)
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*2001-2004: [http://www.lrz-muenchen.de/~Molekulare-Biotechnologie/ BSc Molecular Biotechnology], [http://portal.mytum.de/welcome_en/document_view? Technical University of Munich]
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==Expertise==
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Profound knowledge of gene regulatory systems and networks with a particular focus on post-transcriptional gene regulation; strong background in biochemistry, molecular biology, cell biology; familiarity with bioinformatics and biotechnology concepts and methods
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==Publications==
==Publications==
<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications.  You can add or remove lines as needed -->
<!-- Replace the PubMed ID's ("pmid=#######") below with the PubMed ID's for your publications.  You can add or remove lines as needed -->
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<biblio>
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*<u>Kanitz A</u>, Gerber AP. (2010). '''Circuitry of mRNA regulation'''. ''Wiley Interdiscip Rev Syst Biol Med. 2(2):245-51''
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#Paper4 Kanitz A and Gerber AP. [http://dx.doi.org/10.1002/wsbm.55 ''Circuitry of mRNA regulation.''] Wiley Interdisciplinary Reviews: Systems Biology and Medicine 2009 Sep 30. doi: 10.1002/wsbm.55
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#Paper3 pmid=18776931
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#Paper2 pmid=18560152
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#Paper1 pmid=17630838
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</biblio>
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==Useful links==
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*Galgano A, Forrer M, Jaskiewicz L, <u>Kanitz A</u>, Zavolan M, Gerber AP. (2008). '''Comparative analysis of mRNA targets for human PUF-family proteins suggests extensive interaction with the miRNA regulatory system'''. ''PLoS One. 3(9):e3164''
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*[http://gerber.openwetware.org Gerber Lab on OWW]
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*[http://www.pharma.ethz.ch/institute_groups/pharmacogenomics/research_gerber/index Gerber Lab @ Institute of Pharmaceutical Sciences, ETH Zurich, Switzerland]
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*Korndörder IP, <u>Kanitz A</u>, Danzer J, Zimmer M, Loessner MJ, Skerra A. (2008). '''Structural analysis of the L-alanoyl-D-glutamate endopeptidase domain of Listeria bacteriophage endolysin Ply500 reveals a member of the LAS peptidase family'''. ''Acta Crystallogr D Biol Crystallogr. 64(Pt 6):644-50''
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*Markusic DM, <u>Kanitz A</u>, Oude-Elferink RP, Seppen J. (2007). '''Preferential gene transfer of lentiviral vectors to liver-derived cells, using a hepatitis B peptide displayed on GP64'''. ''Hum Gene Ther. 18(7):673-9''
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==Links==
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*[http://gerber.openwetware.org Gerber Lab, Institute of Biosciences and Medicine, University of Surrey, UK]
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*[http://www.pharma.ethz.ch/institute_groups/pharmacogenomics/ Detmar Lab, Institute of Pharmaceutical Sciences, ETH Zurich, Switzerland]
*[http://www.lifescience-graduateschool.ch/ Life Science Zurich Graduate School]
*[http://www.lifescience-graduateschool.ch/ Life Science Zurich Graduate School]
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*[http://www.imcb.a-star.edu.sg/php/vinayt.php Tergaonkar Lab @ Institute of Molecular and Cell Biology, Biopolis, Singapore]
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*[http://www.imcb.a-star.edu.sg/php/vinayt.php Tergaonkar Lab, Institute of Molecular and Cell Biology, Singapore]
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*[http://www.lrz-muenchen.de/~Biologische-Chemie/ Skerra Lab @ Institute of Biological Chemistry, Technical University of Munich, Germany (German only)]
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*[http://www.lrz-muenchen.de/~Biologische-Chemie/ Skerra Lab, Institute of Biological Chemistry, Technical University of Munich, Germany (German only)]
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Revision as of 06:15, 5 March 2012

Contact information

  • ETH Zurich

     Department of Chemistry and Applied Biosciences
     Institute of Pharmaceutical Sciences / Pharmacogenomics Unit
     Wolfgang Pauli-Strasse 10
     8093 Zurich
     Switzerland
     Google Maps link


Research interests

  • Gene regulatory networks
  • Laboratory automation / informatics ("Science 2.0")
  • Synthetic biology


Current position

I am currently looking for a post-doc position that allows me to apply and further develop my bioinformatics skills, ideally for the description of gene regulatory networks or the development of lab automation software/services.


Research experience

11-2007 – 12-2011
Pharmacogenomics Unit, Institute of Pharmaceutical Sciences, ETH Zurich, Switzerland
Supervision: Prof. Dr. André Gerber, Prof. Dr. Michael Detmar
Project title: “Tools and strategies for the unraveling of post-transcriptional gene regulatory networks”

12-2006 – 02-2007
Swammerdam Institute of Life Sciences, University of Amsterdam, The Netherlands
Supervision: Prof. Dr. Stanley Brul, Dr. Hans van der Spek
Project title: “Status, complications and future prospects of highly active antiretroviral therapy”

02-2006 – 07-2006
Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR), Singapore
Supervision: Prof. Dr. Vinay Tergaonkar
Project title: “Characterization of a putative IKK2 in Danio Rerio”

10-2004 – 09-2005
Department of Hepatology, Academic Medical Center, University of Amsterdam, The Netherlands
Supervision: Prof. Dr. Jurgen Seppen
Project titles: ”Lentiviral gene transfer of chemically inducible hepatocyte growth factor receptor” and “Liver re-targeting of lentiviral particles”

03-2004 – 07-2004
Institute of Biological Chemistry, Technical University of Munich, Germany
Supervision: Prof. Dr. Arne Skerra, Dr. habil. Ingo Korndörfer
Project title: ”Production and characterization of the enzymatically active domain of the endolysine Ply500 isolated from Listeria monocytogenes bacteriophage A 500”

08-2003 – 10-2003 & 07-2004 – 08-2004
Traineeships Research and Development at Micromet, Inc., Munich, Germany


Acquired skills

Experienced with transcriptomics (microarray) and proteomics (mass spectrometry) techniques as well as standard biochemical, molecular and cell biological techniques (cell culturing, cloning, Western/Northern blotting, immunopurification, qPCR, FACS, immunofluorescence, in vitro enzymatic and binding assays); used model systems: human cell lines, zebrafish, E. coli, P. pastoris, lentiviral vectors; profound knowledge of statistical and bioinformatics-based analytical methods (intermediate to advanced knowledge of Perl); highly developed scientific writing, data preparation, presentation and publication skills


Education

Molecular Life Sciences, Ph.D., ETH Zurich, Switzerland (December 2011)
Medical Biochemistry, M.Sc., University of Amsterdam, The Netherlands (March 2007)
Molecular Biotechnology, B.Sc., Technical University of Munich, Germany (July 2004)


Expertise

Profound knowledge of gene regulatory systems and networks with a particular focus on post-transcriptional gene regulation; strong background in biochemistry, molecular biology, cell biology; familiarity with bioinformatics and biotechnology concepts and methods


Publications

  • Kanitz A, Gerber AP. (2010). Circuitry of mRNA regulation. Wiley Interdiscip Rev Syst Biol Med. 2(2):245-51
  • Galgano A, Forrer M, Jaskiewicz L, Kanitz A, Zavolan M, Gerber AP. (2008). Comparative analysis of mRNA targets for human PUF-family proteins suggests extensive interaction with the miRNA regulatory system. PLoS One. 3(9):e3164
  • Korndörder IP, Kanitz A, Danzer J, Zimmer M, Loessner MJ, Skerra A. (2008). Structural analysis of the L-alanoyl-D-glutamate endopeptidase domain of Listeria bacteriophage endolysin Ply500 reveals a member of the LAS peptidase family. Acta Crystallogr D Biol Crystallogr. 64(Pt 6):644-50
  • Markusic DM, Kanitz A, Oude-Elferink RP, Seppen J. (2007). Preferential gene transfer of lentiviral vectors to liver-derived cells, using a hepatitis B peptide displayed on GP64. Hum Gene Ther. 18(7):673-9


Links



Locations of visitors to this page
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