Dr Pavlos Antoniou | Principal Software Developer

Antoniou, Pavlos

I am a principal software developer/informatician for the Human Genetics Informatics group. I work closely with the faculty of Human Genetics to develop informatics solutions to analyse and visualise genomic data from population studies utilising current technologies. I enjoy creating user-friendly and interactive applications that contrinute to the presentation and analysis of biological data.

I am currently involved in developing software solutions to analyse genome-wide association studies datasets from two projects of the human genetics faculty. I am using hail, a python based data analysis tool that uses spark technologies to distribute the data on cloud clusters.

I have a background in genetics, computer science and bioinformatics and have worked as a cancer analyst for Genomics England but also as a lead clinical bioinformatician for the NHS. I am an HCPC registered clinical scientist and I have worked on diagnostic pipelines and clinical software development for many years. 

I believe that many questions can be answered when the data is presented in a coherent and interactive way therefore I am interested in developing web applications using  html, css and javascript with a focus on providing excellent user experience. Through my role in the Human Genetics Informatics Team I aim to develop web applications for the users of the human genetics faculty to visualise the results of their studies and interact with the scale and presentation of the data.  

Publications

  • The complete costs of genome sequencing: a microcosting study in cancer and rare diseases from a single center in the United Kingdom.

    Schwarze K, Buchanan J, Fermont JM, Dreau H, Tilley MW et al.

    Genetics in medicine : official journal of the American College of Medical Genetics 2019

  • Clinical whole-genome sequencing from routine formalin-fixed, paraffin-embedded specimens: pilot study for the 100,000 Genomes Project.

    Robbe P, Popitsch N, Knight SJL, Antoniou P, Becq J et al.

    Genetics in medicine : official journal of the American College of Medical Genetics 2018;20;10;1196-1205

  • Clinically actionable mutation profiles in patients with cancer identified by whole-genome sequencing.

    Schuh A, Dreau H, Knight SJL, Ridout K, Mizani T et al.

    Cold Spring Harbor molecular case studies 2018;4;2

  • Whole-genome fetal and maternal DNA methylation analysis using MeDIP-NGS for the identification of differentially methylated regions.

    Keravnou A, Ioannides M, Tsangaras K, Loizides C, Hadjidaniel MD et al.

    Genetics research 2016;98;e15

  • Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing.

    Leontiou CA, Hadjidaniel MD, Mina P, Antoniou P, Ioannides M and Patsalis PC

    PloS one 2015;10;8;e0135058

  • Implementation of high resolution whole genome array CGH in the prenatal clinical setting: advantages, challenges, and review of the literature.

    Evangelidou P, Alexandrou A, Moutafi M, Ioannides M, Antoniou P et al.

    BioMed research international 2013;2013;346762

  • A fast and efficient algorithm for mapping short sequences to a reference genome.

    Antoniou P, Iliopoulos CS, Mouchard L and Pissis SP

    Advances in experimental medicine and biology 2010;680;399-403

  • Algorithms for mapping short degenerate and weighted sequences to a reference genome.

    Antoniou P, Iliopoulos CS, Mouchard L and Pissis SP

    International journal of computational biology and drug design 2009;2;4;385-97

Antoniou, Pavlos
Pavlos's Timeline
2019

Joined Human Genetics Informatics Group at Sanger Institute

2017

NHS Addenbrookes' Hospital Cambridge - Lead Bioinformatician

2016

Genomics England - Cancer Analyst

HCPC Clinical scientist registration

2014

University of Oxford, John Radcliffe Hospital - High Throughput bioinformatician

MSc in Medical Genetics - Cyprus School of Molecular Genetics

2011

Cyprus Institute of Neurology and Genetics - Bioinformatician

2010

Postdoctoral Scientist at INRIA Rennes, France

2009

PhD in Computer Science - King's College London

2005

MSc in Bioinformatics - Cardiff University

2004

BSc in Computer Science - University of Cyprus