A Data Mining Approach for the detection of High-Risk Breast Cancer Groups
It is widely agreed that complex diseases are typically caused by the joint effects of multiple instead of a single genetic variation. These genetic variations may show very little effect individually but strong effect if they occur jointly, a phenomenon known as epistasis or multilocus interaction. In this seminar, we explore the applicability of decision trees to this problem. A case-control study was performed,
composed of 164 controls and 94 cases with 32 SNPs available from the BRCA1, BRCA2 and TP53 genes. There was also information about tobacco and alcohol consumption. We used a Decision Tree to find a group with high-susceptibility of suffering from breast cancer. Our goal was to find one or more leaves with a high percentage of cases and small percentage of controls. To statistically validate the association found, permutation tests were used. We found a high-risk breast cancer group composed of 13 cases and only 1 control, with a Fisher Exact Test value of 9:7 * 10^-6. After running 10000 permutation tests we obtained a p-value of 0.017. These results show that it is possible to find statistically significant associations with breast cancer by deriving a decision tree and selecting the best leaf.
Date: 2010-Apr-09 Time: 14:00:00 Room: 336
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Workshop “Metabolism and mathematical models: Two for a tango” – 2nd Edition
Title: Workshop Metabolism and mathematical models: Two for a tango – 2nd Edition
Dates: October 25-26, 2022
Location: This workshop will be held in a virtual way
The topic of this workshop is metabolism in general, with a special focus, although not exclusive, on parasitology. Besides an exploration of the biological, biochemical and biomedical aspects, the workshop will also aim at presenting some of the mathematical modelling, algorithmic theory and software development that have become crucial to explore such aspects.
This workshop is being organised in the context of two projects, both with the Inria European Team Erable. One of the projects involves a partnership with the University of São Paulo (USP), in São Paulo, Brazil, more specifically the Institute of Mathematics and Statistics (IME) and the Institute of Biomedical Sciences – Inria Associated Team Capoeira – and the other involves the Inesc-ID/IST in Portugal, ETH in Zürich and EMBL in Heidelberg – H2020 Twinning Project Olissipo.
The workshop is open to all members of these two projects but also, importantly, to the community in general.
The program and more details are available here.