Kimon has joined the group as part of our BBSRC funded collaboration with Gordon Simpson.
Kimon studied Biology at the National and Kapodistrian University of Athens, eventually realizing that computer programming offered him a much more satisfying experience than pipettes and colourless microdroplets. He swung away from the wet lab with an MSc in Bioinformatics at the same university. Leaving the sun behind, he completed a PhD in Bioinformatics at King's College London, and then moved across the UK, further away from any hint of the unbearable Mediterranean warmth, to join the Barton Group as a postdoc bioinformatician crunching transcriptomic data.
Throughout most of his life, Karate has kept Kimon sane and healthy, both through training and teaching. Other activities include photography, music, cycling, diving and an insatiable appetite for building LEGO.
Kimon joined us on 1st October 2015
At the end of May 2018, Kimon moved on to pastures new on the Continent of Europe!
Marek is a member of the Data Analysis Group (DAG). He was originally supported by funding from the Centre for Gene Regulation and Expression as part of our joint venture to carry out innovative data analysis for high data content/high-throughput techniques such as proteomics mass-spectrometry and next generation DNA sequencing.
Marek was born and educated in Poland. He graduated from the Jagiellonian University in Krakow and completed his PhD in astrophysics at N. Copernicus Centre in Warsaw. He moved to The University of Durham in 2000 as a postdoc and stayed there until 2009 in a succession of research and teaching positions. His main interest there was weird astrophysical objects: black holes and neutron stars. 2009 marked a dramatic change in his career: switching to Bioinformatics. One huge step for a man!
Marek joined the DAG on 23rd March 2009.
2018: Marek is still here in the DAG, I have just moved him to Barton Group Alumni since the DAG is now an independent group!
Kira joined the group on 1st October 2015 as part of our BBSRC funded collaboration with Gordon Simpson. On 1st October 2016 she moved to a new position with the Jalview Team.
After a first degree in Maths and Computation at the University of Oxford, and an MSc in Operational Research at the University of Lancaster, Kira spent 8 years working as a software developer and team lead, working on projects ranging from staff and production scheduling, internet traffic simulations, geographical information systems, and machine vision for inspecting carpets and sorting mushrooms (not at the same time). Following an MSc and PhD in Neuroinformatics at the University of Edinburgh, and a postdoc working on an EU cognitive robotics project, she decided it was time to swap artificial life forms for real ones by joining the Barton group.
In her free time she can be found 'relaxing' in Body Combat classes, pottering around the garden, or tracking down remote branches of her family tree.
Kira joined the group on 1st October 2015.
On 5th March 2018, Kira moved on to a position with the company Synpromics at Edinburgh.
Fábio joined us as Ph.D. student on the Wellcome Trust Ph.D. programme in September 2013.
His project was to study the impact of genetic variation on protein structure and interfaces. He submitted his Ph.D. in August 2016 and then became a Research Assistant in the group.
Before joining the group, Fábio obtained his B.Sc. in Biochemistry and his M.Sc. in Molecular Genetics and Biomedicine at the Universidade Nova de Lisboa. Getting more interested in programming and databases, Fábio shifted to bioinformatics joining the group of Prof. Ludwig Krippahl, where he worked on correlated-mutations and protein-protein docking.
When he is away from the computer, Fábio can be found at the swimming pool or most likely at the music room, where he dives into his piano improvisation.
Fábio joined the Group on: 1st September 2013.
Fábio successfully defended his Ph.D. Thesis at the end of 2016. His examiners were David Jones from (UCL) and Helen Walden (Dundee). Since October 2016, Fábio has been working on the BBSRC funded Dundee Resource project which includes JPred and the JABAWS webservices.
At the beginning of January 2018, Fábio moved on to a staff position working in Rodrigo Lopez's web production team at the European Bioinformatics Institute.
Thiago joined the group as a Ph.D. student on the CAPES scheme from Brazil. Thiago did his bachelor's (2010) and M.Sc. (2012) in Biophysics at the Biophysical Institute Carlos Chagas Filho. His Ph.D. is funded by the School of Life Sciences and the Brazilian Agency CAPES. His initial project is to study protein O-GlcNAcylation and then build an efficient and accurate substrate predictor for this reaction which will combine data from Daan Van Aalten's Group with the expertise in the Barton Group on Neural Network classifiers.
Thiago joined the Group on 5th November 2012.
Thiago successfully defended his Ph.D. Thesis in December 2016. His Ph.D. Examiners were Andrew Martin (UCL) and David Martin (Dundee).
Thiago took up a post-doc position in the Dieterich Lab in October 2017.
Chris is Senior Bioinformatics Research Officer and founder member of the Data Analysis Group. Like former Group member Ian Overton, Chris previously worked in Simon Hubbard's group at Manchester. Chris found the attraction of Dundee too great to miss, he dragged his family along with him, although his wife was happy to be back in Scotland!
Chris left the bench after a traumatising Ph.D. and has been "doing" Bioinformatics ever since. In that time he has worked on protein-protein interface prediction, homology modelling, prion protein structure analysis and various aspects of proteomics.
Chris joined the Group to forge links between the Barton Group and wet-lab researchers in the School of Life Sciences. He worked on protein structure prediction and proteomics, before being the first to do deep analysis of Next Generation DNA sequencing data in Dundee in collaboration with Gyorgy Hutvagner. He then became the founding member of the Data Analysis Group (DAG) and from March 2011 has worked primarily on a Wellcome Trust Funded collaboration with Irwin McLean. In March 2014 he returned full-time to the Data Analysis Group but will maintain his involvement with the Centre for Dermatology and Genetic Medicine (DGEM).
Chris joined the Group on 1st Feb 2006. He moved on to a PI position at the Leverhulme Research Centre for Forensic Science on 1st September 2017.
Charles Joined the Jalview team on 1st October 2014 as a software developer to help with new feature development and architectural enhancement.
Charles (a.k.a Tochukwu) obtained a Bachelor's degree in Electrical/Electronics Engineering from Nigeria, and then worked for a software company in Nigeria for about two years before deciding to proceed for his master's studies in Software Engineering at the University of Southampton, UK in 2012.
Immediately after his masters he moved to Aberdeen to work with the dot.rural research hub at University of Aberdeen as a Semantic web developer, a move which caused his friends to tease that he had become an extremist by moving from the extreme South to the extreme North of the UK!
Outside work, Charles enjoys chilling with friends, watching sci-fi movies, chess, badminton and Disk Jockeying"
Tochukwu (Charles) joined the group on 1st October 2014, then moved on to a position in Mike Sternberg's group at Imperial College London, on 1st July 2017.
Joe joined as a postdoc bioinformatician working with the Genomic Sequencing Unit (GSU) at Dundee. Having grown up in Hampshire, he's been slowly working his way up the United Kingdom. After doing a bachelor's degree in biochemistry at the University of Nottingham, Joe decided to unleash his inner nerd to get as far away from lab equipment as possible, so went on to do a masters degree and a Ph.D. in bioinformatics at the University of Leeds.
Joe joined the Group on 1st March 2013, then moved on to a position at The University of St Andrews on 18th November 2016.
Reema is working as a postdoc with Pauline Schaap's group in collaboration with us on the analysis of transcriptomics data in Dictyostelium and related organisms.
Reema completed her Masters in Bioinformatics from CCS Haryana Agricultural University. She then joined a bioinformatics research project at the Indian Council of Medical Research. After completing two years, she registered for a Ph.D. in "Computational Biology and Bioinformatics" at Jawaharlal Nehru University in 2009.
Reema joined the Team on 15th October 2013, then moved back to a job in India in November 2016 before taking up a new position at the University of Saskatchewan, Canada in April 2017.
Pieta is a member of the Data Analysis Group (DAG) a sub-group of the Barton Group. Pieta is supported by funding from the Centre for Gene Regulation and Expression as part of our joint venture to carry out innovative data analysis for high data content/high-throughput techniques such as proteomics mass-spectrometry and next generation DNA sequencing.
After working as a programmer and systems analyst for various finance sector companies, Pieta spent five years working as systems manager for the Parke-Davis Neuroscience Research Centre in Cambridge. She then returned to academia completing a PhD in mathematical biology at the University of Dundee in 2002. Since then she completed a Wellcome Trust Training Fellowship in Mathematical Biology, switching theoretical insects for the real thing. Pieta joined the Data Analysis Group in January 2009 from the SCRI where she developed methods for thermographic detection of plant stress.
Pieta joined the DAG on 1st January 2009
After over 7 years in the group and 18 years in Dundee, Pieta left in August 2016 for a new job at the Cancer Research UK Manchester Institute.
Gabriele is a visiting postdoc from the University of
Edinburgh. Her main research interests are to develop and apply
novel machine learning tools for the analysis of
high-throughput sequencing (NGS) data. She is currently
holding a Marie Curie Fellowship, jointly
in Dr Guido
Sanguinetti's group at the School of Informatics, and in Prof Adrian
Bird's lab at the Wellcome Trust Centre for Cell Biology.
Previously, she completed a Ph.D. at the Max Planck Campus, Tübingen, Germany, working in the groups of Gunnar Rätsch, Bernhard Schölkopf and Detlef Weigel.
Gabriele began her visit to the Group during 2013. On July 1st 2018 she started as a tenure track PI in the Division of Computational Biology with a joint appointment at the University of Tubingen, Germany.
Alexey has joined us to do new research and development on JPred, Jabaws and other resources that we have developed in the group. He is funded by BBSRC. Alexey has made the move from high energy physics (with main focus on the Higgs boson discovery) to bioinformatics after more than a decade working on the LHC project at CERN, Geneva, Switzerland. Alexey received his Bachelor and Master degrees in Physics in 1999 and 2001 from the Novosibirsk State University (Russia), and his PhD in Physics in 2007 from the University of Florida (USA).
Outside work Alexey enjoys practicing and teaching yoga, training, running, and all things in Nature.
Alexey joined the group on 16th June 2014.
Alexey left the group on 20th March 2016 to pursue a new career as a data analytics consultant in London UK with the company Altius.
Nancy joined the group as a Ph.D. student on the Wellcome Trust 4-year programme in September 2012. She graduated in 2011 with a B.Sc. in Biochemistry (honours) with a Minor in Mathematics from Lafayette College, USA. While interning in an academic physiotherapy laboratory at the University of East London, she wrote a script to analyse data from motor-evoked potentials. This experience sparked her interest in programming and learning Python through a computational methods course at Lafayette. Wanting to apply these methods in a biological context, Nancy did a rotation in The Barton Group aimed at refining protein secondary structure prediction by incorporating natively unstructured regions. Her current project focusses on determining new genomic features in the Saccharomyces cerevisiae genome with RNA-seq.
Outside of the School, she struggles to hold yoga poses and enjoys being part of the University Choir."
Nancy joined the Group on 1st September 2012. She defended her Ph.D. thesis on 22nd December 2015. Her Ph.D. examiners were Prof. Simon Hubbard (Manchester) and Dr David Martin (Dundee). Nancy is now pursuing a medical degree in the USA.
After a bachelor's degree in Physics and a Masters in Signal Processing and Computational Systems at the National University of Athens, Konstantinos was appointed as a high-school teacher in public education. Then, for over a decade he was seconded to the Managing Authority 'Education and Life Long Learning' of the Hellenic Ministry of Education, developing business software, supporting users, and as project manager for Programmes co-funded by the European Regional Development Fund. The budget of his supervised programmes amounted to 40m Euro, and the Management Information System he developed was acknowledged by the Hellenic Special Secretary of European Funds as a best practice for other Operational Programmes. Nevertheless, as the 'Life Long Learning' motto dictated, he carried out a Ph.D. in Bioinformatics at the Department of Computer Science and Biomedical Informatics of the University of Central Greece. Konstantinos has joined the group as a post-doc/programmer to work on software development for proteomics.
Konstantinos joined the Group on 6th August 2012 and returned to his job with the Greek minstry of education in Athens on 10th October 2014.
Sasha studied for an MSci in nuclear physics at the Moscow State University in Russia and made his Ph.D. thesis in theoretical particle physics at the same university. As a postgraduate student Sasha was a long-time visitor at the European Organization for Nuclear Research - CERN (Geneva, Switzerland) from MSU and did research on properties of the Higgs boson and the top quark for the CMS collaboration. Sasha has had postdoc positions at the University of Cambridge and at the University of Oxford. His main scientific projects over the last 8 years before transition to bioinformatics were Monte-Carlo generators of events of elementary particle collisions, large programs used by particle physicists in search for new elementary particles on huge particle accelerators such as the LHC at CERN. Apart from an interest in scientific programming Sasha has always had a strong interest in data analysis techniques, especially in neural networks and other "soft computing" methods.
Sasha joined the Group originally to work on the the study of alternative polyadenylation in Arabidopsis by deep sequencing techniques. This BBSRC funded project was jointly held with Dr Gordon Simpson from the Division of Plant Sciences. However, from from March 2013, Sasha moved onto a new BBSRC funded project to improve and support our web tools: Jpred, Kinomer, Jabaws and TarO.
Sasha joined the Group on 15th May 2010. He moved on to a job with GSK at Stevenage in April 2014.
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