Imperial College London

Dr Joram M. Posma PhD MSc B AS MRSC

Faculty of MedicineDepartment of Metabolism, Digestion and Reproduction

Lecturer in Cancer Informatics
 
 
 
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Contact

 

j.posma11 Website

 
 
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Location

 

101Sir Alexander Fleming BuildingSouth Kensington Campus

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Summary

 

Software and Current Research Projects/Themes

  • SubseT Optimization by Reference Matching (STORM) v2.0 (September 2017) and Resolution EnhanceD STORM (RED-STORM) are freely available from BitBucket (click images for links to BitBucket).
  • MetaboNetworks v2.1 (September 2017) is freely available from the MATLAB File Exchange (v2.2 (June 2018) is available from BitBucket, click image for link to BitBucket).
  • Covariate Adjusted PLS (CAPLS) v1.5 (June 2018) is freely available from BitBucket (click image for link to BitBucket).
  • MetaboPathways v1.0 (June 2018) is freely available from BitBucket (click image for link to BitBucket).

Teaching materials

 

Codes, example data and group data available using this link from the Box folder for the STRATiGRAD data treatment course (11/12/2018).

Codes and example data available using this link from the Box folder for the STRATiGRAD NMR Metabolite Identification course (29/04/2019).

Projects and Themes

  • Rutherford Fund Fellowship at Health Data Research (HDR) UK "Identification of Metabolic Phenotypes and Systemic Biochemical Reaction Networks Associated with Human Blood Pressure" (MR/S004033/1)
The integrated systems network of blood pressure

The integrated systems network of blood pressure

  • Robust multi-omic data fusion

Hierarchical model fusion

  • Multi-class clustering and prediction

Multi-class fusion

  • Network fusion and knowledge evolution
Network knowledge evolution in 3D immersive reality

Network knowledge evolution in 3D immersive reality


  • MRes project (in collaboration with Dr Katia De Filippo) on Data visualization and analysis of intravital microscopy multi-layered video data using statistical machine learning undertaken by MRes in Cancer Informatics student Hoai-An Truong.

Data visualization and analysis of intravital microscopy multi-layered video data using statistical machine learning

Guest Lectures

Monitoring diet more accurately to aid healthy living (in a post-COVID society), Health Data Research UK, London, 2020

Integrating omics to understand blood pressure variation, MRC London Institute of Medical Sciences, London, United Kingdom, 2020

A Systems Biological Approach to the Interpretation of Multi-omics Data, Stellenbosch University, Stellenbosch, South Africa, 2019

Systemic nutriome-metabolome interactions to understand pathways to disease risk in humans, Murdoch University, Perth, Australia, 2019

Research Student Supervision

Anholt,L, Expanding the systems view of biology and disease by integrating genome-wide association catalog data in the visualization of metabolic reaction networks

Chaitrakulthong,N, Expanding the systems view of colorectal cancer risk by integrating genome-wide association catalog data in the visualization of metabolic reaction networks with MetaboNetworks

Gao,M, Data visualization and analysis of intravital microscopy multi-layered video (4D) data to identify how splenic neutrophils are controlled in their activation, location and migration by other splenic players

Hu,Y, Natural language processing of biomedical literature: automated mining of metabolome-wide association studies

Ibrahim,M, Natural language processing of biomedical literature: automated mining of genome-wide association studies

Kasapi,M, Integration of faecal metabolic phenotypes and gut microbiota in subtypes of irritable bowel syndrome

Sun,A, Natural language processing of biomedical literature to support automated mining of genome-wide association studies

Truong,A, Data visualization and analysis of intravital microscopy multi-layered video data using statistical machine learning