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We consider the problem of evaluating dynamic consistency in discrete time probabilistic filters that approximate stochastic system state densities with Gaussian mixtures. Dynamic consistency means that the estimated probability distributions correctly describe the actual uncertainties. As such, the problem of consistency testing naturally arises in applications with regards to estimator tuning and validation. However, due to the general complexity of the density functions involved, straightforward approaches for consistency testing of mixture-based estimators have remained challenging to define and implement. This paper derives a new exact result for Gaussian mixture consistency testing within the framework of normalized deviation squared (NDS) statistics. It is shown that NDS test statistics for generic multivariate Gaussian mixture models exactly follow mixtures of generalized chi-square distributions, for which efficient computational tools are available. The accuracy and utility of the resulting consistency tests are numerically demonstrated on static and dynamic mixture estimation examples.

Prediction of binding sites for transcription factors is important to understand how they regulate gene expression and how this regulation can be modulated for therapeutic purposes. Although in the past few years there are significant works addressing this issue, there is still space for improvement. In this regard, a transformer based capsule network viz. DNABERT-Cap is proposed in this work to predict transcription factor binding sites mining ChIP-seq datasets. DNABERT-Cap is a bidirectional encoder pre-trained with large number of genomic DNA sequences, empowered with a capsule layer responsible for the final prediction. The proposed model builds a predictor for transcription factor binding sites using the joint optimisation of features encompassing both bidirectional encoder and capsule layer, along with convolutional and bidirectional long-short term memory layers. To evaluate the efficiency of the proposed approach, we use a benchmark ChIP-seq datasets of five cell lines viz. A549, GM12878, Hep-G2, H1-hESC and Hela, available in the ENCODE repository. The results show that the average area under the receiver operating characteristic curve score exceeds 0.91 for all such five cell lines. DNABERT-Cap is also compared with existing state-of-the-art deep learning based predictors viz. DeepARC, DeepTF, CNN-Zeng and DeepBind, and is seen to outperform them.

We investigate the problem of multiplex graph embedding, that is, graphs in which nodes interact through multiple types of relations (dimensions). In recent years, several methods have been developed to address this problem. However, the need for more effective and specialized approaches grows with the production of graph data with diverse characteristics. In particular, real-world multiplex graphs may exhibit a high number of dimensions, making it difficult to construct a single consensus representation. Furthermore, important information can be hidden in complex latent structures scattered in multiple dimensions. To address these issues, we propose HMGE, a novel embedding method based on hierarchical aggregation for high-dimensional multiplex graphs. Hierarchical aggregation consists of learning a hierarchical combination of the graph dimensions and refining the embeddings at each hierarchy level. Non-linear combinations are computed from previous ones, thus uncovering complex information and latent structures hidden in the multiplex graph dimensions. Moreover, we leverage mutual information maximization between local patches and global summaries to train the model without supervision. This allows to capture of globally relevant information present in diverse locations of the graph. Detailed experiments on synthetic and real-world data illustrate the suitability of our approach to downstream supervised tasks, including link prediction and node classification.

We develop a general theory to optimize the frequentist regret for sequential learning problems, where efficient bandit and reinforcement learning algorithms can be derived from unified Bayesian principles. We propose a novel optimization approach to generate "algorithmic beliefs" at each round, and use Bayesian posteriors to make decisions. The optimization objective to create "algorithmic beliefs," which we term "Algorithmic Information Ratio," represents an intrinsic complexity measure that effectively characterizes the frequentist regret of any algorithm. To the best of our knowledge, this is the first systematical approach to make Bayesian-type algorithms prior-free and applicable to adversarial settings, in a generic and optimal manner. Moreover, the algorithms are simple and often efficient to implement. As a major application, we present a novel algorithm for multi-armed bandits that achieves the "best-of-all-worlds" empirical performance in the stochastic, adversarial, and non-stationary environments. And we illustrate how these principles can be used in linear bandits, bandit convex optimization, and reinforcement learning.

signSGD is popular in nonconvex optimization due to its communication efficiency. Yet, existing analyses of signSGD rely on assuming that data are sampled with replacement in each iteration, contradicting the practical implementation where data are randomly reshuffled and sequentially fed into the algorithm. We bridge this gap by proving the first convergence result of signSGD with random reshuffling (SignRR) for nonconvex optimization. Given the dataset size $n$, the number of epochs of data passes $T$, and the variance bound of a stochastic gradient $\sigma^2$, we show that SignRR has the same convergence rate $O(\log(nT)/\sqrt{nT} + \|\sigma\|_1)$ as signSGD \citep{bernstein2018signsgd}. We then present SignRVR and SignRVM, which leverage variance-reduced gradients and momentum updates respectively, both converging at $O(\log (nT)/\sqrt{nT} + \log (nT)\sqrt{n}/\sqrt{T})$. In contrast with the analysis of signSGD, our results do not require an extremely large batch size in each iteration to be of the same order as the total number of iterations \citep{bernstein2018signsgd} or the signs of stochastic and true gradients match element-wise with a minimum probability of 1/2 \citep{safaryan2021stochastic}. We also extend our algorithms to cases where data are distributed across different machines, yielding dist-SignRVR and dist-SignRVM, both converging at $O(\log (n_0T)/\sqrt{n_0T} + \log (n_0T)\sqrt{n_0}/\sqrt{T})$, where $n_0$ is the dataset size of a single machine. We back up our theoretical findings through experiments on simulated and real-world problems, verifying that randomly reshuffled sign methods match or surpass existing baselines.

Resonance based numerical schemes are those in which cancellations in the oscillatory components of the equation are taken advantage of in order to reduce the regularity required of the initial data to achieve a particular order of error and convergence. We investigate the potential for the derivation of resonance based schemes in the context of nonlinear stochastic PDEs. By comparing the regularity conditions required for error analysis to traditional exponential schemes we demonstrate that at orders less than $ \mathcal{O}(t^2) $, the techniques are successful and provide a significant gain on the regularity of the initial data, while at orders greater than $ \mathcal{O}(t^2) $, that the resonance based techniques does not achieve any gain. This is due to limitations in the explicit path-wise analysis of stochastic integrals. As examples of applications of the method, we present schemes for the Sch\"odinger equation and Manakov system accompanied by local error and stability analysis as well as proof of global convergence in both the strong and path-wise sense.

Modern neural recording techniques allow neuroscientists to obtain spiking activity of multiple neurons from different brain regions over long time periods, which requires new statistical methods to be developed for understanding structure of the large-scale data. In this paper, we develop a bi-clustering method to cluster the neural spiking activity spatially and temporally, according to their low-dimensional latent structures. The spatial (neuron) clusters are defined by the latent trajectories within each neural population, while the temporal (state) clusters are defined by (populationally) synchronous local linear dynamics shared with different periods. To flexibly extract the bi-clustering structure, we build the model non-parametrically, and develop an efficient Markov chain Monte Carlo (MCMC) algorithm to sample the posterior distributions of model parameters. Validating our proposed MCMC algorithm through simulations, we find the method can recover unknown parameters and true bi-clustering structures successfully. We then apply the proposed bi-clustering method to multi-regional neural recordings under different experiment settings, where we find that simultaneously considering latent trajectories and spatial-temporal clustering structures can provide us with a more accurate and interpretable result. Overall, the proposed method provides scientific insights for large-scale (counting) time series with elongated recording periods, and it can potentially have application beyond neuroscience.

Conventional entity typing approaches are based on independent classification paradigms, which make them difficult to recognize inter-dependent, long-tailed and fine-grained entity types. In this paper, we argue that the implicitly entailed extrinsic and intrinsic dependencies between labels can provide critical knowledge to tackle the above challenges. To this end, we propose \emph{Label Reasoning Network(LRN)}, which sequentially reasons fine-grained entity labels by discovering and exploiting label dependencies knowledge entailed in the data. Specifically, LRN utilizes an auto-regressive network to conduct deductive reasoning and a bipartite attribute graph to conduct inductive reasoning between labels, which can effectively model, learn and reason complex label dependencies in a sequence-to-set, end-to-end manner. Experiments show that LRN achieves the state-of-the-art performance on standard ultra fine-grained entity typing benchmarks, and can also resolve the long tail label problem effectively.

Humans perceive the world by concurrently processing and fusing high-dimensional inputs from multiple modalities such as vision and audio. Machine perception models, in stark contrast, are typically modality-specific and optimised for unimodal benchmarks, and hence late-stage fusion of final representations or predictions from each modality (`late-fusion') is still a dominant paradigm for multimodal video classification. Instead, we introduce a novel transformer based architecture that uses `fusion bottlenecks' for modality fusion at multiple layers. Compared to traditional pairwise self-attention, our model forces information between different modalities to pass through a small number of bottleneck latents, requiring the model to collate and condense the most relevant information in each modality and only share what is necessary. We find that such a strategy improves fusion performance, at the same time reducing computational cost. We conduct thorough ablation studies, and achieve state-of-the-art results on multiple audio-visual classification benchmarks including Audioset, Epic-Kitchens and VGGSound. All code and models will be released.

Heterogeneous graph neural networks (HGNNs) as an emerging technique have shown superior capacity of dealing with heterogeneous information network (HIN). However, most HGNNs follow a semi-supervised learning manner, which notably limits their wide use in reality since labels are usually scarce in real applications. Recently, contrastive learning, a self-supervised method, becomes one of the most exciting learning paradigms and shows great potential when there are no labels. In this paper, we study the problem of self-supervised HGNNs and propose a novel co-contrastive learning mechanism for HGNNs, named HeCo. Different from traditional contrastive learning which only focuses on contrasting positive and negative samples, HeCo employs cross-viewcontrastive mechanism. Specifically, two views of a HIN (network schema and meta-path views) are proposed to learn node embeddings, so as to capture both of local and high-order structures simultaneously. Then the cross-view contrastive learning, as well as a view mask mechanism, is proposed, which is able to extract the positive and negative embeddings from two views. This enables the two views to collaboratively supervise each other and finally learn high-level node embeddings. Moreover, two extensions of HeCo are designed to generate harder negative samples with high quality, which further boosts the performance of HeCo. Extensive experiments conducted on a variety of real-world networks show the superior performance of the proposed methods over the state-of-the-arts.