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Objective functions for training of deep networks for face-related recognition tasks, such as facial expression recognition (FER), usually consider each sample independently. In this work, we present a novel peak-piloted deep network (PPDN)…

Convolutional neural networks (CNNs) are widely used for image recognition and text analysis, and have been suggested for application on one-dimensional data as a way to reduce the need for pre-processing steps. Pre-processing is an…

Unraveling the co-expression of genes across studies enhances the understanding of cellular processes. Inferring gene co-expression networks from transcriptome data presents many challenges, including spurious gene correlations, sample…

We perform differential expression analysis of high-throughput sequencing count data under a Bayesian nonparametric framework, removing sophisticated ad-hoc pre-processing steps commonly required in existing algorithms. We propose to use…

In clinical biomarker studies, the Dynamic Network Biomarker (DNB) is sometimes used. DNB is a composite variable derived from the variance and the Pearson correlation coefficient of biological signals. When applying DNB to clinical data,…

Clinical research often focuses on complex traits in which many variables play a role in mechanisms driving, or curing, diseases. Clinical prediction is hard when data is high-dimensional, but additional information, like domain knowledge…

Disease-gene association through Genome-wide association study (GWAS) is an arduous task for researchers. Investigating single nucleotide polymorphisms (SNPs) that correlate with specific diseases needs statistical analysis of associations.…

Large pre-trained models are usually fine-tuned on downstream task data, and tested on unseen data. When the train and test data come from different domains, the model is likely to struggle, as it is not adapted to the test domain. We…

Transcriptomic analysis are characterized by being not directly quantitative and only providing relative measurements of expression levels up to an unknown individual scaling factor. This difficulty is enhanced for differential expression…

End-to-end deep learning improves breast cancer classification on diffusion-weighted MR images (DWI) using a convolutional neural network (CNN) architecture. A limitation of CNN as opposed to previous model-based approaches is the…

Deep learning (DL) techniques have had unprecedented success when applied to images, waveforms, and texts to cite a few. In general, when the sample size (N) is much greater than the number of features (d), DL outperforms previous machine…

We study the challenges of applying deep learning to gene expression data. We find experimentally that there exists non-linear signal in the data, however is it not discovered automatically given the noise and low numbers of samples used in…

Pseudo-relevance feedback (PRF) can enhance average retrieval effectiveness over a sufficiently large number of queries. However, PRF often introduces a drift into the original information need, thus hurting the retrieval effectiveness of…

Generative adversarial networks (GANs) typically require ample data for training in order to synthesize high-fidelity images. Recent studies have shown that training GANs with limited data remains formidable due to discriminator…

Detecting differences in gene expression is an important part of single-cell RNA sequencing experiments, and many statistical methods have been developed for this aim. Most differential expression analyses focus on comparing expression…

Retrosynthesis, which aims to find a route to synthesize a target molecule from commercially available starting materials, is a critical task in drug discovery and materials design. Recently, the combination of ML-based single-step reaction…

Convolutional Neural Networks (CNNs) can learn effective features, though have been shown to suffer from a performance drop when the distribution of the data changes from training to test data. In this paper we analyze the internal…

We introduce a unified and computationally efficient framework for regression on network data, addressing limitations of existing models that require specialized estimation procedures or impose restrictive decay assumptions. Our Network…

Medical Ultrasound (US) is one of the most widely used imaging modalities in clinical practice, but its usage presents unique challenges such as variable imaging quality. Deep Learning (DL) models can serve as advanced medical US image…

Convolutional Neural Network (CNN) is more and more widely used in various fileds, and its computation and memory-demand are also increasing significantly. In order to make it applicable to limited conditions such as embedded application,…