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Mayte Suárez-Fariñas

Publications and source records attributed to Mayte Suárez-Fariñas.

2 recordsLinked to original sources

SoftStep: Learning Sparse Similarity Powers Deep Neighbor-Based Regression

Neighbor-based methods are a natural alternative to linear prediction for tabular data when relationships between inputs and targets exhibit complexity such as nonlinearity, periodicity, or heteroscedasticity. Yet in deep learning on unstructured data, nonparametric neighbor-based approaches are rarely implemented in lieu of simple linear heads. This is primarily due to the ability of systems equipped with linear regression heads to co-learn internal representations along with the linear head's parameters. To unlock the full potential of neighbor-based methods in neural networks we introduce SoftStep, a parametric module that learns sparse instance-wise similarity measures directly from data. When integrated with existing neighbor-based methods, SoftStep enables regression models that consistently outperform linear heads across diverse architectures, domains, and training scenarios. We focus on regression tasks, where we show theoretically that neighbor-based prediction with a mean squared error objective constitutes a metric learning algorithm that induces well-structured embedding spaces. We then demonstrate analytically and empirically that this representational structure translates into superior performance when combined with the sparse, instance-wise similarity measures introduced by SoftStep. Beyond regression, SoftStep is a general method for learning instance-wise similarity in deep neural networks, with broad applicability to attention mechanisms, metric learning, representational alignment, and related paradigms.

cs.LG↗

Multi-TGDR: a regularization method for multi-class classification in microarray experiments

Background With microarray technology becoming mature and popular, the selection and use of a small number of relevant genes for accurate classification of samples is a hot topic in the circles of biostatistics and bioinformatics. However, most of the developed algorithms lack the ability to handle multiple classes, which arguably a common application. Here, we propose an extension to an existing regularization algorithm called Threshold Gradient Descent Regularization (TGDR) to specifically tackle multi-class classification of microarray data. When there are several microarray experiments addressing the same/similar objectives, one option is to use meta-analysis version of TGDR (Meta-TGDR), which considers the classification task as combination of classifiers with the same structure/model while allowing the parameters to vary across studies. However, the original Meta-TGDR extension did not offer a solution to the prediction on independent samples. Here, we propose an explicit method to estimate the overall coefficients of the biomarkers selected by Meta-TGDR. This extension permits broader applicability and allows a comparison between the predictive performance of Meta-TGDR and TGDR using an independent testing set. Results Using real-world applications, we demonstrated the proposed multi-TGDR framework works well and the number of selected genes is less than the sum of all individualized binary TGDRs. Additionally, Meta-TGDR and TGDR on the batch-effect adjusted pooled data approximately provided same results. By adding Bagging procedure in each application, the stability and good predictive performance are warranted. Conclusions Compared with Meta-TGDR, TGDR is less computing time intensive, and requires no samples of all classes in each study. On the adjusted data, it has approximate same predictive performance with Meta-TGDR. Thus, it is highly recommended.

stat.ME↗