Dr Daniele Muraro | Computational Biologist - Staff Scientist

Muraro, Daniele

My role is to provide an interface between experimental teams working on host-pathogen interactions and more computationally focussed groups at the Institute. Currently, my main project is the computational analysis of how the deletion of key immune system genes affects the transcriptional response of mouse embryonic stem cell derived macrophages to a variety of innate immune system stimuli.

I graduated in 2007 with a PhD in Mathematical Physics (University of Milan) in the area of Perturbation Theory for Hamiltonian Systems, I have then held four postdoctoral positions (Universities of Lisbon, Nottingham and Oxford) in Mathematical Biology during which I applied and developed a range of computational techniques to investigate different biological systems (Drosophila embryos, Arabidopsis thaliana roots, Human and Mouse intestinal epithelium). My computational work mainly focused on the areas of modelling and optimisation of molecular interaction networks, analysis of gene expression data, mathematical models to study cell proliferation, differentiation and death (pattern formation, mechanistic growth, cell population dynamics). In May 2017 I joined Billker Group as a Staff Scientist to provide computational support to the study of host-pathogen interactions.

Publications

  • Snapin promotes HIV-1 transmission from dendritic cells by dampening TLR8 signaling.

    Khatamzas E, Hipp MM, Gaughan D, Pichulik T, Leslie A et al.

    The EMBO journal 2017;36;20;2998-3011

  • Cell proliferation within small intestinal crypts is the principal driving force for cell migration on villi.

    Parker A, Maclaren OJ, Fletcher AG, Muraro D, Kreuzaler PA et al.

    FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2017;31;2;636-649

  • An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease.

    Muraro D and Simmons A

    BMC bioinformatics 2016;17;42

  • Prioritisation and network analysis of Crohn's disease susceptibility genes.

    Muraro D, Lauffenburger DA and Simmons A

    PloS one 2014;9;9;e108624

  • Integration of hormonal signaling networks and mobile microRNAs is required for vascular patterning in Arabidopsis roots.

    Muraro D, Mellor N, Pound MP, Help H, Lucas M et al.

    Proceedings of the National Academy of Sciences of the United States of America 2014;111;2;857-62

  • Inference of the genetic network regulating lateral root initiation in Arabidopsis thaliana.

    Muraro D, Voβ U, Wilson M, Bennett M, Byrne H et al.

    IEEE/ACM transactions on computational biology and bioinformatics 2013;10;1;50-60

  • The role of auxin and cytokinin signalling in specifying the root architecture of Arabidopsis thaliana.

    Muraro D, Byrne H, King J and Bennett M

    Journal of theoretical biology 2013;317;71-86

  • Root development: cytokinin transport matters, too!

    Muraro D, Wilson M and Bennett MJ

    Current biology : CB 2011;21;11;R423-5

  • The influence of cytokinin-auxin cross-regulation on cell-fate determination in Arabidopsis thaliana root development.

    Muraro D, Byrne H, King J, Voss U, Kieber J and Bennett M

    Journal of theoretical biology 2011;283;1;152-67

  • Calibration and validation of a genetic regulatory network model describing the production of the protein Hunchback in Drosophila early development.

    Dilão R and Muraro D

    Comptes rendus biologies 2010;333;11-12;779-88

  • A software tool to model genetic regulatory networks. Applications to the modeling of threshold phenomena and of spatial patterning in Drosophila.

    Dilão R and Muraro D

    PloS one 2010;5;5;e10743

  • mRNA diffusion explains protein gradients in Drosophila early development.

    Dilão R and Muraro D

    Journal of theoretical biology 2010;264;3;847-53

  • Snapin promotes HIV-1 transmission from dendritic cells by dampening TLR8 signaling.

    Khatamzas E, Hipp MM, Gaughan D, Pichulik T, Leslie A et al.

    The EMBO journal 2017;36;20;2998-3011

  • Cell proliferation within small intestinal crypts is the principal driving force for cell migration on villi.

    Parker A, Maclaren OJ, Fletcher AG, Muraro D, Kreuzaler PA et al.

    FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2017;31;2;636-649

  • An integrative analysis of gene expression and molecular interaction data to identify dys-regulated sub-networks in inflammatory bowel disease.

    Muraro D and Simmons A

    BMC bioinformatics 2016;17;42

  • Integration of hormonal signaling networks and mobile microRNAs is required for vascular patterning in Arabidopsis roots.

    Muraro D, Mellor N, Pound MP, Help H, Lucas M et al.

    Proceedings of the National Academy of Sciences of the United States of America 2014;111;2;857-62

  • Prioritisation and network analysis of Crohn's disease susceptibility genes.

    Muraro D, Lauffenburger DA and Simmons A

    PloS one 2014;9;9;e108624

  • The role of auxin and cytokinin signalling in specifying the root architecture of Arabidopsis thaliana.

    Muraro D, Byrne H, King J and Bennett M

    Journal of theoretical biology 2013;317;71-86

  • Inference of the genetic network regulating lateral root initiation in Arabidopsis thaliana.

    Muraro D, Voβ U, Wilson M, Bennett M, Byrne H et al.

    IEEE/ACM transactions on computational biology and bioinformatics 2013;10;1;50-60

  • Root development: cytokinin transport matters, too!

    Muraro D, Wilson M and Bennett MJ

    Current biology : CB 2011;21;11;R423-5

  • Calibration and validation of a genetic regulatory network model describing the production of the protein Hunchback in Drosophila early development.

    Dilão R and Muraro D

    Comptes rendus biologies 2010;333;11-12;779-88

  • mRNA diffusion explains protein gradients in Drosophila early development.

    Dilão R and Muraro D

    Journal of theoretical biology 2010;264;3;847-53

  • A software tool to model genetic regulatory networks. Applications to the modeling of threshold phenomena and of spatial patterning in Drosophila.

    Dilão R and Muraro D

    PloS one 2010;5;5;e10743

Muraro, Daniele
Daniele's Timeline
2017

Joined Wellcome Sanger Institute as Staff Scientist

2016

Postdoctoral Researcher, Mathematical Institute, University of Oxford, UK.

2012

Postdoctoral Researcher, The Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, UK.

2009

Postdoctoral Researcher, Centre for Plant Integrative Biology (CPIB), School of Biosciences, University of Nottingham, UK.

2007

Postdoctoral Researcher, Department of Physics, Technical University of Lisbon, Portugal.

2003

PhD in Mathematics, Mathematical Physics, University of Milan, Italy.