CyVerse UK

GARNet and CyVerseUK are organising a workshop to provide hands-on training for the software tools that the CyVerseUK grant has developed (

These tools are designed to be used with data from any experimental system so researchers who work in any organism are encouraged to attend.

The new software tools are for the analysis of RNAseq, GWAS, gene expression and imaging data. The workshop has a training-focus so each attendee will be provided with datasets to work with so that they gain hands-on experience in using these software tools. The workshop is designed for new users so no prior knowledge is required.

The workshop is on March 20th-21st at the University of York and costs just £35!
The registration deadline is Wednesday March 1st but places are limited.

Registration and more information can be found here:

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Sainsbury PhD Studentship opportunity

We are recruiting for a Sainsbury PhD Studentship which will be competitively awarded for entry in Octobber 2017. These studentships are prestigious and well-funded and enable excellent students to undertake a PhD in plant science. Proposals for PhD work in the DenbyLab should fall under the title “Tricking plant pathogens: exploiting pathogen effectors to develop durable disease resistance“.

If you are interested please contact Katherine to discuss the opportunity and potential projects further. The deadline for applications is Feb 24th 2017 with interviews on March 10th 2017.

See details at Nature.

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BBSRC White Rose DTP PhD opportunity

A competitively funded PhD studentship is available in the Denby group. This project – Keeping time on immunity – will be funded through the BBSRC White Rose Mechanistic Biology DTP and is a 4 year studentship.

Please contact Katherine if you are interested in this project and would like more information or want to discuss the project in more detail. The deadline for applications is Sunday January 8th 2017.

We look forward to hearing from motivated scientists looking to learn a range of skills and contribute to a productive and friendly research group.

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The Denbylab has moved!

downloadWe have moved to the Biology Department at the University of York. We have unpacked the lab in our new home and are ready to go.  If you are nearby please come and say hello.


AgriFoodLogo_Horizontal_RGBKatherine has also taken on a new exciting role as Academic Director of the N8 AgriFood programme; the launch event on 21st -22nd June in Manchester promises to be a fantastic event so hope to see you there!


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Plant circadian clocks enable plants to predict when they’ll be infected

Watch a short video on our recent publication identifying JAZ6 as a mechanism linking the plant circadian clock and immune response. The paper is published in Plant Journal (2015, 84:937-948).

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Read about our recent paper on defence against Pseudomonas syringae

In this GARNet blog – – you can read about our recent paper using time series transcriptome data to probe the plant defence response against the bacterial pathogen Pseudomonas syringae. You can also listen to the lead author Prof. Murray Grant talking about the significance of this work.

Lewis LA, Polanski K, de Torres-Zabala M, Jayaraman S, Bowden L, Moore J, Penfold CA, Jenkins DJ, Hill C, Baxter L, Kulasekaran S, Truman W, Littlejohn G, Prusinska J, Mead A, Steinbrenner J, Hickman R, Rand D, Wild DL, Ott S, Buchanan-Wollaston V, Smirnoff N, Beynon J, Denby K, Grant M (2015) Transcriptional Dynamics Driving MAMP-Triggered Immunity and Pathogen Effector-Mediated Immunosuppression in Arabidopsis Leaves Following Infection with Pseudomonas syringae pv tomato DC3000 Plant Cell.

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Three year EPSRC PhD studentship available to start October 2015

We are looking for strong candidates with a degree in either mathematics, biology, the physical sciences, or related disciplines with a keen interest to work in an interdisciplinary environment.

Warwick Systems Biology Centre invites applications for an EPSRC 3-year funded PhD project. UK students and EU students resident in the UK for three or more years are eligible for a full award. EU students are eligible for a fees-only award. Non-EU applicants are not eligible.
Systems biology involves developing the understanding of a biological system through the mathematical and computational modelling of the interactions of components of the system, leading to the expression of this understanding in qualitative and quantitative terms. A key feature that distinguishes the modern approach to Systems Biology is the aim of linking modelling with the huge volume and diversity of contemporary cellular and molecular data such as that coming from high-throughput, genome-wide and imaging technologies. Understanding of complex biological processes will allow us to tackle many important problems and will be crucial in addressing an enormously broad range of biological and medical priorities such as disease mechanisms, pharmaceutical drug discovery, drug target validation, and horticulture and agriculture.

If you are keen to do a project in Plant Systems Biology or have questions please contact me (

If you are interested in other areas including Medical Systems Biology, Cellular Mechanics/Spatial Systems Biology, Cell Signalling: Dynamics and Function of the NF-κB Signalling System, Computational Neuroscience, Hormone Homeostasis, Parkinson’s Disease and Ageing or Machine Learning and Data Science – please contact

Application deadline is July 31st to start October 2015

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