arXiv research

Deep learning predicts stress levels from mouse hippocampus activity.

Machine learning detects survey validity from user behavior.

Automated model tracks mouse behavior in home cages.

Deep learning models outperform classical methods in forecasting neural activity.

Neural nets predict user attention from mouse movements.

Decodes neural activity to detect context effects in natural settings.

This research uses Siamese networks to identify partial mouse brain images from the Allen atlas.

New ensemble models classify mouse movement trajectories to assess survey question difficulty.

Identification of patterns from discrete data time-series for statistical inference, threat detection, social opinion dynamics, brain activity prediction has received recent momentum. In addition to the huge data size, the associated challenges are, for example, (i) missing data to construct a closed time-varying compl…

Active learning method for neural population dynamics using optogenetics.

Mouse dynamics is a potential means of authenticating users. Typically, the authentication process is based on classical machine learning techniques, but recently, deep learning techniques have been introduced for this purpose. Although prior research has demonstrated how machine learning and deep learning algorithms c…

Feature selection predicts immune state changes in RA mouse model.

New framework assesses neural sensitivity to small perturbations.

We propose a multimodal approach for detection of students' behavioral engagement states (i.e., On-Task vs. Off-Task), based on three unobtrusive modalities: Appearance, Context-Performance, and Mouse. Final behavioral engagement states are achieved by fusing modality-specific classifiers at the decision level. Various…

Gaussian graphical models are widely used to represent conditional dependence among random variables. In this paper, we propose a novel estimator for data arising from a group of Gaussian graphical models that are themselves dependent. A motivating example is that of modeling gene expression collected on multiple tissu…

TNDE quantifies dynamic gene drivers from single-cell snapshots.

Graph auto-encoder predicts unobserved node features from biological networks and omics data.

Although we have tons of machine learning tools to analyze data, most of them require users have some programming backgrounds. Here we introduce a SaaS application which allows users analyze their data without any coding and even without any knowledge of machine learning. Users can upload, train, predict and download t…

We propose a general modeling and inference framework that composes probabilistic graphical models with deep learning methods and combines their respective strengths. Our model family augments graphical structure in latent variables with neural network observation models. For inference, we extend variational autoencode…

The interplay between inter-neuronal network topology and cognition has been studied deeply by connectomics researchers and network scientists, which is crucial towards understanding the remarkable efficacy of biological neural networks. Curiously, the deep learning revolution that revived neural networks has not paid …

Malware authors have always been at an advantage of being able to adversarially test and augment their malicious code, before deploying the payload, using anti-malware products at their disposal. The anti-malware developers and threat experts, on the other hand, do not have such a privilege of tuning anti-malware produ…

Many real-valued stochastic time-series are locally linear (Gassian), but globally non-linear. For example, the trajectory of a human hand gesture can be viewed as a linear dynamic system driven by a nonlinear dynamic system that represents muscle actions. We present a mixed-state dynamic graphical model in which a hid…

While label fusion from multiple noisy annotations is a well understood concept in data wrangling (tackled for example by the Dawid-Skene (DS) model), we consider the extended problem of carrying out learning when the labels themselves are not consistently annotated with the same schema. We show that even if annotators…

Boolean matrix factorisation aims to decompose a binary data matrix into an approximate Boolean product of two low rank, binary matrices: one containing meaningful patterns, the other quantifying how the observations can be expressed as a combination of these patterns. We introduce the OrMachine, a probabilistic genera…

ChronoMID builds on the success of cross-modal convolutional neural networks (X-CNNs), making the novel application of the technique to medical imaging data. Specifically, this paper presents and compares alternative approaches - timestamps and difference images - to incorporate temporal information for the classificat…

Paper analyzes adversarial attacks and defenses using game theory.

State-of-the-art deep neural networks (DNNs) are highly effective in solving many complex real-world problems. However, these models are vulnerable to adversarial perturbation attacks, and despite the plethora of research in this domain, to this day, adversaries still have the upper hand in the cat and mouse game of ad…

Extracting an understanding of the underlying system from high dimensional data is a growing problem in science. Discovering informative and meaningful features is crucial for clustering, classification, and low dimensional data embedding. Here we propose to construct features based on their ability to discriminate bet…

We describe a procedure to deform cubulations of hyperbolic groups by "bending hyperplanes". Our construction is inspired by related constructions like Thurston's Mickey Mouse example, walls in fibred hyperbolic $3$-manifolds and free-by-$\mathbb Z$ groups, and Hsu-Wise turns. As an application, we show that every coco…

Neural networks promise to bring robust, quantitative analysis to medical fields, but adoption is limited by the technicalities of training these networks. To address this translation gap between medical researchers and neural networks in the field of pathology, we have created an intuitive interface which utilizes the…

Cellina uses supervised disentanglement to predict cell behavior in tissues.

Volumetric analysis of brain ventricle (BV) structure is a key tool in the study of central nervous system development in embryonic mice. High-frequency ultrasound (HFU) is the only non-invasive, real-time modality available for rapid volumetric imaging of embryos in utero. However, manual segmentation of the BV from H…

New model detects communities in networks with signed, continuous weights.

Quantifying behavior is crucial for many applications in neuroscience. Videography provides easy methods for the observation and recording of animal behavior in diverse settings, yet extracting particular aspects of a behavior for further analysis can be highly time consuming. In motor control studies, humans or other …

Understanding if classifiers generalize to out-of-sample datasets is a central problem in machine learning. Microscopy images provide a standardized way to measure the generalization capacity of image classifiers, as we can image the same classes of objects under increasingly divergent, but controlled factors of variat…

Sparse Convex Biclustering improves accuracy and robustness in high-dimensional datasets.

ODBAE detects complex phenotypes in biological data.

Neuroscientists classify neurons into different types that perform similar computations at different locations in the visual field. Traditional methods for neural system identification do not capitalize on this separation of 'what' and 'where'. Learning deep convolutional feature spaces that are shared among many neuro…

Fluorescence microscopy has enabled a dramatic development in modern biology. Due to its inherently weak signal, fluorescence microscopy is not only much noisier than photography, but also presented with Poisson-Gaussian noise where Poisson noise, or shot noise, is the dominating noise source. To get clean fluorescence…

Classical models describe primary visual cortex (V1) as a filter bank of orientation-selective linear-nonlinear (LN) or energy models, but these models fail to predict neural responses to natural stimuli accurately. Recent work shows that models based on convolutional neural networks (CNNs) lead to much more accurate p…

In statistical connectomics, the quantitative study of brain networks, estimating the mean of a population of graphs based on a sample is a core problem. Often, this problem is especially difficult because the sample or cohort size is relatively small, sometimes even a single subject. While using the element-wise sampl…

Clustering high-dimensional data, such as images or biological measurements, is a long-standingproblem and has been studied extensively. Recently, Deep Clustering has gained popularity due toits flexibility in fitting the specific peculiarities of complex data. Here we introduce the Mixture-of-Experts Similarity Variat…

Develops probabilistic models for gene regulatory network inference.

Bayesian method learns graph structures from Gaussian data efficiently.

Many activation functions have been proposed in the past, but selecting an adequate one requires trial and error. We propose a new methodology of designing activation functions within a neural network at each layer. We call this technique an "activation ensemble" because it allows the use of multiple activation functio…

Developed a multiway classification method for sparse data.

This paper studies activation sparsity in large language models, finding key trends and implications.

Activity recognition from sensor data deals with various challenges, such as overlapping activities, activity labeling, and activity detection. Although each challenge in the field of recognition has great importance, the most important one refers to online activity recognition. The present study tries to use online hi…