Omics based clinical decision support - Large scale and online computing to advance (omics-based) clinical decision support and life sciences research
From 01-08-2014 to 31-07-2015
Description
In the future, large amounts of complex clinical data are expected to become available in real time. Currently this is mainly limited to clinical measurements which can largely be analysed using fast signal processing techniques (heart rate, respiratory signals, ...). A paradigm shift will occur once new omics data for patients will become available in real time. For instance in adaptive clinical trials, it is expected that omics data are routinely collected, which then need to be analysed quickly in order to make evidence-based clinical decisions on trial design. Patients' omics-based molecular profiles may be linked to treatment outcomes (or intermediate trial observations), which in turn may lead to improved stratification of study groups.
The challenge, then, is to obtain precise, up-to-date models at a high speed to uncover potential associations between incoming molecular profiles and treatment outcomes / observations. Online learning is a promising technique to achieve this goal. Online learning aims to update existing models when new data becomes available. This is faster than retraining from scratch and makes processing complex data in real time feasible, even when processing necessitates non-linear modeling.
Another challenge is coping with large amounts of omics data, stressing the need for large scale computing and database infrastructures. Finally, in order to be able to test modeling methodologies for online and large scale learning, the project involves generating simulated omics datasets in anticipation of large volumes of real data.
Therefore, this project will address the challenges of online learning, kernel methods for large-scale problems, and simulated datasets, as described below. This entails the following research tasks:
· Further development of online learning with kernel methods
· Development of HPC-implementations of kernel methods
· Generation of simulated genome-wide datasets to test the scalability of aforementioned methods
Team
- Maira Ribeiro Rodrigues, Grantee
- Bart De Moor, Promoter
- Inge Thijs, Team member
Financing
Funding: KU Leuven - Internal Funding KU Leuven
Program/Grant Type: KUL Other - Other Internal KUL funding
Events
2/09/2024:
PhD defense - Martijn Oldenhof
Machine Learning for Advanced Chemical Analysis and Structure Recognition in Drug Discovery
3/09/2024:
Meet the Jury Igor Tetko on Advanced Machine Learning in Drug Discovery
12/09/2024:
Multimodal analysis of cell-free DNA for sensitive cancer detection in low-coverage and low-sample settings
Seminar by Antoine Passemiers
News
STADIUS Alumni Herman Verrelst – new CEO of Biocartis
08 June 2017
Herman Verrelst, the founder of KU Leuven spin-off Cartagenia, who has been working in Silicon Valley, US for the last few years will be returning to Belgium to follow the steps of Rudi Pauwels as CEO of the Belgian diagnostic company, Biocartis.
Supporting healthcare policymaking via machine learning – batteries included!
29 May 2017
STADIUS takes the lead in the data analytics efforts in an ambitious European Project MIDAS.
Marc Claesen gives an interview about his PhD for the magazine of the Faculty of Engineering Sciences "Geniaal"
10 February 2017
Did you know that in Belgium approximately one third of type 2 diabetes patients are unaware of their condition?
Joos Vandewalle is nieuwe voorzitter KVAB
09 October 2016
Op 5 oktober 2016 heeft de Algemene Vergadering van de Academie KVAB Joos Vandewalle verkozen tot voorzitter van de KVAB.