Tommy Carstensen | Senior Bioinformatician

Carstensen, Tommy

Tommy is a senior bioinformatician and PhD student in the Sandhu Group. He primarily works with human genetics in an African context using whole genome sequence data from thousands of individuals.

I am a senior bioinformatician in the Sandhu Group and currently work with human genetics in an African context. I am also a PhD student at the University of Cambridge, supervised by Dr Manj Sandhu.

Currently my main activity involves the creation of a haplotype reference panel specific to the African continent; i.e. the African Diversity Reference Panel. Prior to this I was involved in the African Genome Variation Project led by Dr Deepti Gurdasani and Dr Manj Sandhu. One of my contributions to this project was writing the program RagTagger, which is scalable for selection of tag SNP across the genome. I am interested in the creation of resources to the scientific community such as reference panels and SNP arrays specific to the African content. I am continually interested in and excited by the field of human genetics and its capacity to make positive contributions to human health.

I have been programming for more than 10 years and I enjoy optimising existing methods and coming up with new approaches and methods for efficiently handling and analysing whole genome sequence data. I mostly write my code in University of Copenhagen and prior to joining the Sandhu Group I operated my own data mining company and had three S&P500 companies as clients.

In my spare time I enjoy creating LEGO projects with a programming, mathematical and life sciences element to them.

Publications

  • The African Genome Variation Project shapes medical genetics in Africa.

    Gurdasani D, Carstensen T, Tekola-Ayele F, Pagani L, Tachmazidou I et al.

    Nature 2015;517;7534;327-32

  • Progress in the prediction of pKa values in proteins.

    Alexov E, Mehler EL, Baker N, Baptista AM, Huang Y et al.

    Proteins 2011;79;12;3260-75

  • On the development of protein pKa calculation algorithms.

    Carstensen T, Farrell D, Huang Y, Baker NA and Nielsen JE

    Proteins 2011;79;12;3287-98

  • Capturing, sharing and analysing biophysical data from protein engineering and protein characterization studies.

    Farrell D, O'Meara F, Johnston M, Bradley J, Søndergaard CR et al.

    Nucleic acids research 2010;38;20;e186

  • Structural artifacts in protein-ligand X-ray structures: implications for the development of docking scoring functions.

    Søndergaard CR, Garrett AE, Carstensen T, Pollastri G and Nielsen JE

    Journal of medicinal chemistry 2009;52;18;5673-84

  • Fractional 13C enrichment of isolated carbons using [1-13C]- or [2- 13C]-glucose facilitates the accurate measurement of dynamics at backbone Calpha and side-chain methyl positions in proteins.

    Lundström P, Teilum K, Carstensen T, Bezsonova I, Wiesner S et al.

    Journal of biomolecular NMR 2007;38;3;199-212

Carstensen, Tommy