Print Email Facebook Twitter Identifying subgroup markers in heterogeneous populations Title Identifying subgroup markers in heterogeneous populations Author De Ronde, J.J. Rigaill, G. Rottenberg, S. Rodenhuis, S. Wessels, L.F.A. Faculty Electrical Engineering, Mathematics and Computer Science Department Intelligent Systems Date 2013-09-22 Abstract Traditional methods that aim to identify biomarkers that distinguish between two groups, like Significance Analysis of Microarrays or the t-test, perform optimally when such biomarkers show homogeneous behavior within each group and differential behavior between the groups. However, in many applications, this is not the case. Instead, a subgroup of samples in one group shows differential behavior with respect to all other samples. To successfully detect markers showing such imbalanced patterns of differential signal, a different approach is required. We propose a novel method, specifically designed for the Detection of Imbalanced Differential Signal (DIDS). We use an artificial dataset and a human breast cancer dataset to measure its performance and compare it with three traditional methods and four approaches that take imbalanced signal into account. Supported by extensive experimental results, we show that DIDS outperforms all other approaches in terms of power and positive predictive value. In a mouse breast cancer dataset, DIDS is the only approach that detects a functionally validated marker of chemotherapy resistance. DIDS can be applied to any continuous value data, including gene expression data, and in any context where imbalanced differential signal is manifested. To reference this document use: http://resolver.tudelft.nl/uuid:b99c5aad-0a44-4e49-bdd5-5f0338bf01c5 DOI https://doi.org/10.1093/nar/gkt845 Publisher Oxford University Press ISSN 0305-1048 Source Nucleic Acids Research, 41 (21), 2013 Part of collection Institutional Repository Document type journal article Rights (c) 2013 The Author(s)This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. Files PDF Wessels 2013.pdf 442.83 KB Close viewer /islandora/object/uuid:b99c5aad-0a44-4e49-bdd5-5f0338bf01c5/datastream/OBJ/view