Pantelis Bagos

Short CV

Pantelis Bagos is Professor of Bioinformatics and Biostatistics at the Department of Computer Science and Biomedical Informatics of the University of Thessaly. He is currently the Dean of the School of Science and Director of the Laboratory of Molecular and Computational Biology and Genetics (www.compgen.org). He studied Biology (BSc) and Biostatistics (MSc) in University of Athens, and obtained his PhD in Bioinformatics from the same university with a Thesis titled: "Prediction of protein structure and function". He also studied Adults Education at the Hellenic Open University. He has been teaching in the University of Athens, University of Peloponnese, University of Central Greece, Hellenic Open University and University of Thessaly, several undergraduate and postgraduate courses of Biology, Genetics, Biostatistics and Bioinformatics. His research interests include prediction of protein structure and function from the primary sequence, development of stochastic models (HMMs) for analyzing biological sequences, large-scale genome analyses, construction of biological databases, analysis of complex biological networks, development of methodology for genetic association and gene expression studies and methodology of meta-analysis. He has co-authored more than 120 papers in peer-reviewed journals (including Nature Communications, Bioinformatics, BMC Bioinformatics, BMC Genetics, Nucleic Acids Research, Proteins, Database, Genetic Epidemiology, Statistics in Medicine) which received more than 5400 citations (as per Google Scholar). He is also the author of the e-book "Bioinformatics" (in Greek), published by the Hellenic Academic Ebooks (Kallipos), which is currently being used as teaching material for Bioinformatics in several Greek Universities. He is reviewer for more than 40 international journals and member of the editorial board of BMC Research Notes, PLOS ONE and The Open Bioinformatics Journal. He is founding member and deputy chair of the Hellenic Society for Computational Biology and Bioinformatics (HSCBB). He participates in several national and international consortia, including BMBS COST Action BM1405: Non-globular proteins - from sequence to structure, function and application in molecular physiopathology (NGP-NET), the ELIXIRgr node in which he is member of the steering committee and Training Coordinator and the international specialized protein resources network (SPRN).

Current Position

Professor at the Department of Computer Science and Biomedical Informatics, University of Thessaly (since 2018)
Dean of the School of Sciences, University of Thessaly (since 2018)
Director of the Laboratory of Molecular and Computational Biology and Genetics (since 2015)

Past Positions

Associate Professor and Deputy Chair of the Department of Computer Science and Biomedical Informatics, University of Thessaly (since 2014)
Instructor at the Hellenic Open University (since 2010), coordinator of the Genetics module (since 2017)
Visiting Professor ("University of Diaspora") at the University of Cyprus Medical School (2017)
Visiting Scientist, SciLifeLab, Stockholms University (2014)
Assistant Professor at the Department of Computer Science and Biomedical Informatics, University of Central Greece (2008-2013)
Visiting Assistant Professor at the Department of Computer Science and Biomedical Informatics, University of Central Greece (2006-2008)
Visiting Lecturer at the Department of Computer Science and Technology, University of Peloponnese (2006-2007)
Post-doctoral Research Fellow at the Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens (2005-2008)

Education

2001-2005: Ph.D in Bioinformatics, Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens.
2001-2002: Postgraduate Certificate of Education (PGCE) in Adults Learning. Hellenic Open University .
1999-2001 : M.Sc in Biostatistics, Department of Mathematics and Medical School of Athens , University of Athens.
1992-1997 : B.Sc. in Biology, Faculty of Biology, University of Athens.

Research interests

My research is focused on the computational analysis of biological sequences (DNA, RNA and proteins). The main research interests include:

prediction of protein structure and function from the primary sequence,
development of stochastic models for analyzing biological sequences,
large-scale genome analyses,
development of methodology for genetic association and gene expression studies (See more).

Publications

I have co-authored more than 140 publications in peer-reviewed journals (Total ISI Impact Factor = 333.603) . For a complete list of publications see here.

Citations

Scopus: citations= 2305, h-index=29, m-index=2.07 (Scopus Citations)

Google Scholar: citations= 3342, h-index=34, m-index=2.42 (Google Scholar Citations)

Research projects as PI

12/2020-, GENOMIC-OASIS: Genomic Analysis of Organisms of Agricultural Interest.
1/2017-12/2019, Delegate of the University of Thessaly in the board of directors of the national infrastructure ELIXIR-GR. Budget allocated to UTH for maintaining the web-tools PRED-TMBB2, OMPdb, GWAR, METAGEN and other research and educational activities
1/2017-12/2019, State Scholarship Foundation fellowship for post-doctoral studies (K. Pantavou): «Meta-analysis of environmental end genetic epidemiology studies»
12/2016-8/2017, State Scholarship Foundation fellowship for post-doctoral studies (P. Kontou): «Methodology for meta-analysis of microarray studies»
4/2015-8/2016, State Scholarship Foundation fellowship for post-doctoral studies (M. Theodoropoulou): «Bioinformatics studies of structure and function of membrane proteins»
4/2015-8/2016, NSF fellowship for doctoral studies (K. Vennou): «Methodology for analysis and meta-analysis of gene expression studies» (€29.408)
8/2015-7/2016, «Information System for Patient Monitoring», Private Funding (donation)
2/2014-7/2015: "Integration of Data from Multiple Sources (IntDaMuS)" ARISTEIA II, (General Secretariat for Research and Technology, Principal Investigator
3/2013-2/2015: «Modern bioinformatics techniques in studying the mechanism of action of membrane receptors and their implications in human diseases», CO-OPERATION 2009 program (Program for co-operation of Universities and Enterprises funded by the Greek Ministry of Education), Principal Investigator for UCG
1/2/2011-31/1/2012: "Algorithms for clustering and visualization in systems biology", Academic supervisor (Post-doctoral research fellowship from the State Scholarships Foundation - Greece)
10/2009-09/2010: “Genetic Epidemiology of metabolic syndrome” Principal Investigator, (Greek Ministry of Health)
06/2007-05/2008: “Development of Bioinformatics methodology for recognition of neighboring transmembrane alpha-helices in multispanning membrane proteins from the aminoacid sequence” (Greek-Cyprus co-operation programme)
02/2007-01/2008: "Machine Learning Algorithms for Bioinformatics" Post-doctoral research fellow (Post-doctoral research fellowship from the State Scholarships Foundation - Greece)
01/2006-12/2006: "PYTHAGORAS II: Mathematical models for Bioinformatics" (EPEAEK)
06/2005-08/2006: "PYTHAGORAS: Development of original methodology and software for constructing multiple alignments of biological sequences and their objective evaluation" (EPEAEK)
5/2005- 8/2006: "Postgraduate program in Bioinformatics" (EPEAEK)
11/2002-05/2005: "IRAKLEITOS: Prediction of structure and function of membrane proteins" (EPEAEK)
4/2001-12/2003: "Development of an integrated framework for studying transmembrane receptors and their ligands through the Internet"
4/2000- 8/2000: "Biostatistics action" (EPEAEK)

Reviewer and Editorial Board member

Editorial board member in peer-reviewed journals

Reviewer for peer-reviewed journals

Professional Activities and Administration

Deputy Chair of the Department of Computer Science and Biomedical Informatics, University of Thessaly
Director of the Laboratory of Molecular and Computational Biology and Genetics
Member of the University of Thessaly Research Committee, Elected Member of the Board of Directors
Founding Member and Deputy Chair of the Board of Directors of the Hellenic Society for Computational Biology and Bioinformatics
Member of ISCB, HSBS
Member of the Steering Committee of BMBS COST Action BM1405: Non-globular proteins - from sequence to structure, function and application in molecular physiopathology (NGP-NET)
Member of the Steering Committee of the ELIXIR-GR node and deputy head of training
Member of the international specialized protein resources network (SPRN)

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