Datasets

• Timeseries used in Zielinski et al. Strengths and Limitations of Period Estimation Methods

  Dataset

• Data, Code and Models for Flis et al. RS Open Biology 2015

  Dataset

Activities

• External examiner for Ph.D.: Understanding the Complex Dynamics of the Molecular Circadian Clock and Designing a Metric of Clock Disruption in Cancer

  Activity: Examination types › External Examiner or Assessor

• UK PlantSci

  Activity: Participating in or organising an event types › Participation in conference

• Chronobiology Workshop: Invited Seminar Speaker

  Activity: Academic talk or presentation types › Invited talk

• York Open lecture

  Activity: Participating in or organising an event types › Public Engagement – Public lecture/debate/seminar

• Plant Transport Group

  Activity: Participating in or organising an event types › Participation in conference

• BioDynamics workshop

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• UK Circadian Clock Club

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• Annual Garnet meeting: The Ongoing Green Revolution

  Activity: Participating in or organising an event types › Participation in conference

• Chronobiology: Past, Present and Future

  Activity: Participating in or organising an event types › Participation in conference

• Hosting Hannah Kinmonth-Schultz, from collaborating Imaizumi lab

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• Fairdom International Scientific Advisory Board

  Activity: Consultancy types › Contribution to the work of national or international committees and working groups

• Women in Science Focus group

  Activity: Academic talk or presentation types › Invited talk

• BBSRC International Systems Biology Panel meeting with ROBuST

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• ROBuST Scientific Advisory Board Meeting 2010

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• ROBuST Scientific Advisory Board Meeting 2011

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• Host to Prof. Salome Prat (Seminar Speaker)

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• Sidaway Lee Curr. Biol. 2010 Press Coverage

  Activity: Other activity types › Types of Public engagement and outreach - Media article or participation

• BBC TV and Radio Broadcasts

  Activity: Other activity types › Types of Public engagement and outreach - Media article or participation

• Interplay of Light, Photoperiodism and Circadian Clock Function

  Activity: Participating in or organising an event types › Participation in conference

• Plant Systems Biology Workshop

  Activity: Participating in or organising an event types › Participation in conference

• Society for Experimental Biology Annual Meeting

  Activity: Participating in or organising an event types › Participation in conference

• Stochastic Modelling Workshop

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• Women in Management Workshop

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• Association of Applied Biologists meeting, "Model Systems to Crops"

  Activity: Participating in or organising an event types › Participation in conference

• ICSB2012 - 12th International Conference on Systems Biology

  Activity: Participating in or organising an event types › Participation in conference

• Gordon Conference: Photosensory Receptors & Signal Transduction

  Activity: Participating in or organising an event types › Participation in conference

• MATLAB and Simulink in Academia

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• ROBuST Annual Workshop

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• BBSRC-NERC LWEC Workshop

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• International Conference in Systems Biology

  Activity: Participating in or organising an event types › Participation in conference

• UK Plant Systems Biology Workshop

  Activity: Participating in or organising an event types › Participation in conference

• The Third BBSRC Annual Systems Biology Grantholders Workshop

  Activity: Participating in or organising an event types › Participation in conference

• International Conference for Arabidopsis Research

  Activity: Participating in or organising an event types › Participation in conference

• Society for Experimental Biology

  Activity: Participating in or organising an event types › Participation in conference

• BBSRC Systems Biology Grant holders Workshop,

  Activity: Participating in or organising an event types › Participation in conference

• UK Plant Systems Biology Workshop

  Activity: Participating in or organising an event types › Participation in conference

• International Plant Systems Biology Conference

  Activity: Participating in or organising an event types › Participation in conference

• Plant stress biotechnology workshop

  Activity: Participating in or organising an event types › Participation in conference

• U3A main lecture: Plants use Biological Clocks to Welcome the Spring and Avoid Economic Crises

  Activity: Other activity types › Types of Public engagement and outreach - Public lecture/debate/seminar

• UK Plant Systems Biology Workshop

  Activity: Participating in or organising an event types › Participation in conference

• Egenis/GARNet "Making Data Accessible to All” workshop

  Activity: Participating in or organising an event types › Participation in conference

• International Symposium on Plant Photobiology

  Activity: Participating in or organising an event types › Participation in conference

• International Symposium on Plant Photobiology

  Activity: Participating in or organising an event types › Participation in conference

• International Plant Molecular Biology Congress

  Activity: Participating in or organising an event types › Participation in conference

• Wageningen Systems Biology Centre Annual Conference

  Activity: Participating in or organising an event types › Participation in conference

• Freiburg Systems Biology Centre conference on Plant Systems Biology

  Activity: Participating in or organising an event types › Participation in conference

• The International Symposium of Photobiology

  Activity: Participating in or organising an event types › Participation in conference

• Symposium for Photomorphogenesis, ESP

  Activity: Participating in or organising an event types › Participation in conference

• ROBuST Annual Workshop

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• ROBuST NF KAPPA B SABR Meeting

  Activity: Participating in or organising an event types › Participation in conference

• Predicting the pleiotropic effects of circadian timing, from clock gene expression to biomass

  Activity: Academic talk or presentation types › Invited talk

• Tutorial webinar on Arabidopsis Framework Model

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• Tutorial webinar on Arabidopsis Framework Model

  Activity: Participating in or organising an event types › Participation in workshop, seminar, course

• Dept. Seminar: "Using multi-scale models to understand daily growth, from the biological clock to biomass."

  Activity: Academic talk or presentation types › Invited talk

• FACCE MACSUR CropM International Symposium and Workshop: Modelling climate change impacts on crop production for food security.

  Activity: Participating in or organising an event types › Participation in conference

• Artist in Residence, Hamer Dodds

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• SBS Seminar

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• Host to Christian Fleck (SynthSys seminar speaker)

  Activity: Other activity types › Types of External academic engagement - Hosting an academic visitor

• Press coverage of article

  Activity: Other activity types › Types of Public engagement and outreach - Media article or participation

• Institute seminar: "Open Research approaches for genome-driven, multi-scale biology"

  Activity: Academic talk or presentation types › Invited talk

Research outputs

• Interaction of light and temperature signalling

  Research output: Contribution to journal › Article

• An augmented Arabidopsis phenology model reveals seasonal temperature control of flowering time

  Research output: Contribution to journal › Article

• Stochastic properties of the plant circadian clock

  Research output: Contribution to journal › Article

• Model selection reveals control of cold signalling by evening-phased components of the plant circadian clock

  Research output: Contribution to journal › Article

• Multiscale digital Arabidopsis predicts individual organ and whole-organism growth

  Research output: Contribution to journal › Article

• Sensitivity, robustness, and identifiability in stochastic chemical kinetics models

  Research output: Contribution to journal › Article

• Balance equations can buffer noisy and sustained environmental perturbations of circadian clocks

  Research output: Contribution to journal › Article

• A stress-free walk from Arabidopsis to crops

  Research output: Contribution to journal › Article

• Prediction of photoperiodic regulators from quantitative gene circuit models

  Research output: Contribution to journal › Article

• Light receptor action is critical for maintaining plant biomass at warm ambient temperatures

  Research output: Contribution to journal › Article

• Plant Systems Modelling portal, PlaSMo

  Research output: Non-textual form › Web publication/site

• The Biodare Data Repository

  Research output: Other contribution

• Online period estimation and determination of rhythmicity in circadian data, using the BioDare data infrastructure

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

• Light and circadian regulation of clock components aids flexible responses to environmental signals

  Research output: Contribution to journal › Article

• Mathematical model of the Arabidopsis circadian clock: Pokhilko 2011 model

  Research output: Other contribution

• Regulatory principles and experimental approaches to the circadian control of starch turnover

  Research output: Contribution to journal › Article

• SBSI: An extensible distributed software infrastructure for parameter estimation in systems biology

  Research output: Contribution to journal › Article

• SPATULA links daytime temperature and plant growth rate

  Research output: Contribution to journal › Article

• Differential control of seed primary dormancy in Arabidopsis ecotypes by the transcription factor SPATULA

  Research output: Contribution to journal › Article

• Analysis of core circadian feedback loop in suprachiasmatic nucleus of mCry1-luc transgenic reporter mouse

  Research output: Contribution to journal › Article

• FKF1 conveys timing information for CONSTANS stabilization in photoperiodic flowering

  Research output: Contribution to journal › Article

• The clock gene circuit in Arabidopsis includes a repressilator with additional feedback loops

  Research output: Contribution to journal › Article

• HIGH EXPRESSION OF OSMOTICALLY RESPONSIVE GENES1 Is Required for Circadian Periodicity through the Promotion of Nucleo-Cytoplasmic mRNA Export in Arabidopsis

  Research output: Contribution to journal › Article

• Inference on periodicity of circadian time series

  Research output: Contribution to journal › Article

• The HY5-PIF Regulatory Module Coordinates Light and Temperature Control of Photosynthetic Gene Transcription

  Research output: Contribution to journal › Article

• Arabidopsis cell expansion is controlled by a photothermal switch

  Research output: Contribution to journal › Article

• Strengths and limitations of period estimation methods for circadian data

  Research output: Contribution to journal › Article

• Mathematical Models Light Up Plant Signaling

  Research output: Contribution to journal › Article

• A role for multiple circadian clock genes in the response to signals that break seed dormancy in Arabidopsis

  Research output: Contribution to journal › Article

• Mathematical model of Arabidopsis vegetative growth: the Framework Model

  Research output: Other contribution

• Network balance via CRY signalling controls the Arabidopsis circadian clock over ambient temperatures

  Research output: Contribution to journal › Article

• Adaptable integration, analysis and data-sharing of diverse multi-omic and low-throughput data: computational platforms from European consortia.

  Research output: Contribution to conference › Poster

• Linked circadian outputs control elongation growth and flowering in response to photoperiod and temperature

  Research output: Contribution to journal › Article

• Defining the robust behaviour of the plant clock gene circuit with absolute RNA timeseries and open infrastructure

  Research output: Contribution to journal › Article

• The Input Signal Step Function (ISSF), a Standard Method to Encode Input Signals in SBML Models with Software Support, Applied to Circadian Clock Models

  Research output: Contribution to journal › Article

• A user-defined data type for the storage of time series data allowing efficient similarity screening

  Research output: Contribution to journal › Article

• Plant development: light exposure directs meristem fate

  Research output: Contribution to journal › Article

• Fruit development: new directions for an old pathway

  Research output: Contribution to journal › Article

• Temperature-sensitive version of P2010 Arabidopsis clock model by Mirela Domijan, from Gould et al. 2013.

  Research output: Other contribution

• The intracellular dynamics of circadian clocks reach for the light of ecology and evolution

  Research output: Contribution to journal › Literature review

• Valuing the project: A knowledge-action response to network governance in collaborative research

  Research output: Contribution to journal › Article

• Linking circadian time to growth rate quantitatively via carbon metabolism

  Research output: Working paper

• The circadian clock rephases during lateral root organ initiation in Arabidopsis Thaliana

  Research output: Contribution to journal › Article

• Practical steps to digital organism models, from laboratory model species to ‘Crops in silico’

  Research output: Contribution to journal › Review article