ABOUT ME

I'm Rob, a PhD student at Imperial College and the Medical Research Council in London. My main research interest is regulatory sequences in animal genomes - regions of DNA that can control the activity of other genes. I am especially interested the way that cells fold their DNA, and how this can influence the effects of these regulatory sequences. There is growing evidence that this folding may be disregulated in some human diseases, and I think research in this area has the potential for opening new therapeutic avenues.

I'm also a keen programmer, especially in python. I've contributed to a number of open source projects, including doit and metaseq. I'm currently writing a genome browser in python called EIYBrowse (Extend It Yourself Browser). I've found programming an invaluable skill during my research and I like to spread the knowledge around, so I contribute to and teach for Software Carpentry. I've written a series of Software Carpentry lessons on using python's doit for automating scientific analysis pipelines.

I still play my guitar every now and then, snowboard as often as I can (i.e. not very often), occasionally sing "Blue Moon" and love to cycle.

Here's some other stuff I've been enjoying recently:

Listening

Watching

Snapping

Reading

RESEARCH

  • 2014
  • MRC Funded PhD Studentship

    MRC Clinical Sciences Centre, London
    Berlin Institute for Medical Systems Biology, Berlin (Oct 2011-Current)

    • Investigating regulation of gene expression by long-range chromatin interactions
    • Co-supervised by Prof. Ana Pombo (MDC) and Prof. Niall Dillon (CSC)
  • Technical Support & Research Assistant

    Charles Beagrie Ltd, Salisbury (Jan 2004-Current)

    • Assisted with data analysis and desktop research for UK Research Data Service Feasibility Study and Keeping Research Data Safe project
  • 2011
  • Research Assistant

    Department of Biochemistry, Cambridge University (Oct 2010-Aug 2011)

    • Studied C. crescentus polynucleotide phosphorylase in Prof. Ben Luisi’s group
    • Cloning, expression, protein affinity purification, enzymatic assays and crystallography
  • 2010
  • Cancer Research UK Summer Studentship

    CRUK London Research Institute, London (Holborn) (Jun 2010-Sep 2010)

    • Studied Polycomb group proteins and their interaction with the ncRNA HOTAIR with Dr. Gordon Peters
    • Chromatin Immunoprecipitation, qPCR, lentiviral shRNA knockdowns, qRT-PCR and western blotting
  • Research Assistant

    Department of Biochemistry, Cambridge University (Jan 2010-May 2010)

    • Development of the NMR analysis tool “DANGLE” with Dr. William Broadhurst
    • Programming, data analysis and statistical work to improve the accuracy of the DANGLE algorithm for predicting protein dihedral angles from chemical shift data
  • 2005
  • Work Experience Student

    Wellcome Trust Sanger Centre, Hinxton (Jun 2005-Jun 2005)

    • 1 week placement with an ENCODE project group
    • 1 week placement in the sequencing centre

BLOG POSTS

Enhancer Journal Club: Global view of enhancer–promoter interactome in human cells

By: Rob Beagrie

One of the key hypotheses which is driving interest in enhancer biology right now is that mutations in enhancer sequences may cause medically relevant changes in gene expression (e.g. in cancer). There has been a great deal of progress in recent years towards high throughput identification of enhancers, but ...

Enhancer Journal Club: Genome-scale functional characterization of Drosophila developmental enhancers in vivo

By: Rob Beagrie

Following on from last month's journal club, there was a new paper this month from the Stark lab in Vienna also dealing with large-scale characterisation of enhancer activity patterns. The original paper can be found at www.nature.com/doifinder/10.1038/nature13395, and the abstract is as follows ...

Enhancer Journal Club: Functional and topological characteristics of mammalian regulatory domains

By: Rob Beagrie

This month, I'm going to do a short journal club on a paper called "Functional and topological characteristics of mammalian regulatory domains", which comes from François Spitz's group at the EMBL. The original paper can be found at http://genome.cshlp.org/content/early/2014/01/07/gr ...

TWEETS

CONTACT

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Email me at rob{at}beagrie.com

Rob Beagrie

MRC Clinical Sciences Centre

Hammersmith Hospital

London

W12 0NN