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I am Postdoctoral Researcher at the Computational Biology Unit and (CBU) and the Centre for Cancer Biomarkers (CCBIO) of the University of Bergen (UiB). Prior to that post I conducted postdoctoral research at the Genome Institute of Singapore (GIS) in Singapore and at the Institute of Cancer Research (ICR) in London. I earned my PhD in Computer Science from King Abdullah University of Science and Technology (KAUST).
I work on the development and application of computational approaches to tackle emerging problems in cancer research. I have particular experience in the analysis of cancer genomic (NGS) data from liquid biopsies, in identifying and characterizing genomic alterations, with applications in cancer therapeutics and precision oncology. I have also expertise on the analysis of CyTOF datasets to characterise cellular features with single cell-resolution. During my research career, I have successfully applied different machine learning techniques in biomarker discovery studies, in gene regulation studies, and in identifying and characterising DNA regulatory elements such as enhancers, promoters and microRNAs. I have also particular expertise in big data integration from multi-omics technologies (genomic, transcriptomic, proteomic and epigenomic), and I am specialist in facilitating biological discoveries using high performance computing (HPC) systems.
Education
2011-2016: PhD in Computer Science at KAUST, Thuwal, Saudi Arabia. Academic Advisors: prof. Panos Kalnis and prof. Vladimir Bajic
2009-2011: Masters Degree in Informatics for Life Sciences (Bioinformatics), Medical School, University of Patras, Greece
2003-2009: Diploma in Computer Science and Engineering, University of Patras, Greece
Publications
Here are my publications
Professional Experience
Dec 2018 - Oct 2019: Postdoctoral fellow in Cancer Therapeutics & Stratified Oncology , Genome Institute of Singapore (GIS), A*STAR Agency for Science, Technology and Research.
Apr 2016 - Dec 2018: Research Bioinformatician, Centre for Evolution and Cancer, Institute of Cancer Research (ICR), London. I worked mainly with Dr Gert Attard from UCL and Dr Marco Gerlinger from ICR.
Sep 2015 - Dec 2015: Research associate at RIKEN Yokohama labs (CLST). I was under the supervision of Dr. Erik Arner
Oct 2013 - Feb 2014: Research associate at Computational Biology Lab at National University of Singapore (NUS). I was under the supervision of prof. Limsoon Wong.
Developed Bioinformatics Software and Databases
dupleCaller: Duplex DNA molecule identification tool
AmpliSolve: SNV detection in Ion AmpliSeq data
TELS : Motif signatures of transcribed enhancers
DEEP : Computational identification of enhancers
PEDAL : Discriminative identification of enhancers' transcriptional responses
MEGA : Memory-efficient genome assembly
DENdb : Database of human enhancers
Hi-Jack : Prediction of host-pathogen interactions
More implementations can be found at my GitHub page
Contact details
dimitrios.kleftogiannis AT kaust DOT edu DOT sa
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