Research

Dr. Amoutzias has authored 43 papers in peer-reviewed journals in the field of Bioinformatics, that have been cited 1582 times (source: Google Scholar).


Short CV of Lab Director Grigoris Amoutzias

Pdf File


Research Positions

January 2014 – present: Assistant Professor of Bioinformatics in Genomics, Department of Biochemistry and Biotechnology, University of Thessaly, Greece.

July 2010 – December 2013: Lecturer of Bioinformatics in Genomics, Department of Biochemistry and Biotechnology, University of Thessaly, Greece.

February 2010 – June 2010: Postdoctoral researcher at the Systems Biology group of Prof. Stephen G. Oliver, Department of Biochemistry, University of Cambridge, UK.

February 2008 – January 2010: EMBO long term fellow at the Bioinformatics and Evolutionary Genomics Group of Prof. Yves Van de Peer, Department of Plant Systems Biology, UGent & VIB, Gent, Belgium.

July 2007 – January 2008: Postdoctoral researcher at the Bioinformatics and Evolutionary Genomics Group of Prof. Yves Van de Peer , Department of Plant Systems Biology, UGent & VIB, Gent, Belgium.

April 2007 – July 2007: Visiting scientist at the Bioinformatics group of Prof. Christos Ouzounis, Institute of Agrobiotechnology, INA, EKETA, Thessaloniki, Greece.

October 2005 - March 2007: First assistant at the Bioinformatics group of Prof. Marc Robinson-Rechavi, Department of Ecology and Evolution, Faculty of Medicine and Biology, University of Lausanne, Switzerland.

September 2004 – September 2005: Research Assistant at the Bioinformatics group of Prof. David Robertson, Department of Bioinformatics, Faculty of Life Sciences, the University of Manchester, UK.

March 2004 – September 2004: EPSRC and CASE (AstraZeneca) funded PhD research project in text mining, at the Pathways group of Dr David De Graaf, in the pharmaceutical company AstraZeneca PLC, Macclessfield, UK and Waltham, MA, USA.


Education

2001-2005: PhD in Bioinformatics, Manchester University, UK. Supervisors: Prof Stephen G. Oliver, Prof Erich Bornberg-Bauer, Dr David Robertson.

2000-2001: MRes in Bioinformatics (with Distinction), Leeds University, UK.

1998-1999: Exchange student with Socrates programme, Queen’s University of Belfast, UK.

1994-1999: Bsc in Biology, Aristotle University of Thessaloniki, Greece.


Awards-Scholarships

2008 – 2010: EMBO long term fellowship.

2005: Best published PhD research of the year 2004 in the Faculty of Life Sciences, University of Manchester, UK. £1200 prize.
    http://www.manchester.ac.uk/press/title,47250,en.htm

2001-2004: EPSRC studentship for PhD studies.

2001-2004: Astrazeneca CASE studentship for PhD studies.

2004: Travel funding to attend the Gordon Conference on Molecular Evolution. Ventura, CA, USA.


Teaching Duties


Undergraduate courses:

1st semester Informatics Course.

4th semester Bioinformatics Course.

8th semester Introduction to Programming Course (together with Dr. Papadopoulos).


Postgraduate courses:

1st semester Bioinformatics in Applications of Molecular Biology- Genetics - Diagnostic Biomarkers MSc course (together with Dr. Papadopoulos - Dept. of Biochemistry and Biotechnology).

1st semester Computational Toxicology, in Toxicology MSc course (Dept. of Biochemistry and Biotechnology).


Training Schools:

Tutor/Trainer in the Training School “Basic bioinformatics analysis for NGS data from small RNA libraries“, held in Thessaloniki, 13 – 15 April 2016.

Also prepared the IT infrastructure of virtual Linux machines and their necessary bioinformatics software for NGS analysis in the Okeanos Greek academic computer cloud.


Selected Publications:

Chaliotis A, Vlastaridis P, Mossialos D, Ibba M, Becker HD, Stathopoulos C and Amoutzias GD. The complex evolutionary history of aminoacyl-tRNA synthetases. Nucleic Acids Res. 2017 Feb 17;45(3):1059-1068. PMID: 28180287

Vlastaridis P, Kyriakidou P, Chaliotis A, Van de Peer Y, Oliver SG, Amoutzias GD. Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes. Gigascience. 2017 Feb 1;6(2):1-11. doi: 10.1093/gigascience/giw015. PMID:28327990

Amoutzias GD, He Y, Lilley KS, Van de Peer Y, Oliver SG. Evaluation and properties of the budding yeast phosphoproteome. Mol Cell Proteomics. 2012 Jun;11(6):M111.009555. PMID: 22286756

Cock MJ, Sterck L, Rouzé P, Scornet D, Allen AE, Amoutzias G, et al. The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature. 2010 Jun 3;465(7298):617-21. PMID: 20520714

Amoutzias GD, He Y, Gordon J, Mossialos D, Oliver SG, Van de Peer Y. Posttranslational regulation impacts the fate of duplicated genes. Proc Natl Acad Sci U S A. 2010 Feb 16;107(7):2967-71. PMID: 20080574

Amoutzias GD, Robertson DL, Van de Peer Y, Oliver SG. Choose your partners: Dimerization in eukaryotic transcription factors. Trends Biochem Sci. 2008 May;33(5):220-9. PMID: 18406148

Amoutzias G, Van de Peer Y. Together we stand: genes cluster to coordinate regulation. Dev Cell. 2008 May;14(5):640-2. PMID: 18477446

Pinney JW, Amoutzias GD, Rattray M, Robertson DL. Reconstruction of ancestral protein interaction networks for the bZIP transcription factors. Proc Natl Acad Sci U S A. 2007 Dec 18;104(51):20449-53. PMID: 18077348

Amoutzias G, Veron A, Weiner A, Robinson-Rechavi M, Bornberg-Bauer E, Oliver S, Robertson D. One Billion Years of bZIP Transcription Factor Evolution: Conservation and Change in Dimerization, and DNA-Binding Site Specificity. Mol Biol Evol. 2006 Dec 28. PMID: 17194801

Amoutzias GD, Robertson DL, Oliver SG, Bornberg-Bauer E. Convergent evolution of gene networks by single-gene duplications in higher eukaryotes.. EMBO Rep. 2004 Mar;5(3):274-9. PMID: 14968135