Unlocking the Power of Multi-institutional Data: Integrating and Harmonizing Genomic Data Across Institutions

Cancer is a complex disease driven by genomic alterations, and tumor sequencing is becoming a mainstay of clinical care for cancer patients. The emergence of multi-institution sequencing data presents a powerful resource for learning real-world evidence to enhance precision oncology. GENIE BPC, led by the American Association for Cancer Research, establishes a unique database linking genomic data with clinical information for patients treated at multiple cancer centers. However, leveraging such multi-institutional sequencing data presents significant challenges. Variations in gene panels result in loss of information when the analysis is conducted on common gene sets. Additionally, differences in sequencing techniques and patient heterogeneity across institutions add complexity. High data dimensionality, sparse gene mutation patterns, and weak signals at the individual gene level further complicate matters. Motivated by these real-world challenges, we introduce the Bridge model. It uses a quantile-matched latent variable approach to derive integrated features to preserve information beyond common genes and maximize the utilization of all available data while leveraging information sharing to enhance both learning efficiency and the model's capacity to generalize. By extracting harmonized and noise-reduced lower-dimensional latent variables, the true mutation pattern unique to each individual is captured. We assess the model's performance and parameter estimation through extensive simulation studies. The extracted latent features from the Bridge model consistently excel in predicting patient survival across six cancer types in GENIE BPC data.

Unleashing the Power of CNN and Transformer for Balanced RGB-Event Video Recognition

Pattern recognition based on RGB-Event data is a newly arising research topic and previous works usually learn their features using CNN or Transformer. As we know, CNN captures the local features well and the cascaded self-attention mechanisms are good at extracting the long-range global relations. It is intuitive to combine them for high-performance RGB-Event based video recognition, however, existing works fail to achieve a good balance between the accuracy and model parameters, as shown in Fig.~\ref{firstimage}. In this work, we propose a novel RGB-Event based recognition framework termed TSCFormer, which is a relatively lightweight CNN-Transformer model. Specifically, we mainly adopt the CNN as the backbone network to first encode both RGB and Event data. Meanwhile, we initialize global tokens as the input and fuse them with RGB and Event features using the BridgeFormer module. It captures the global long-range relations well between both modalities and maintains the simplicity of the whole model architecture at the same time. The enhanced features will be projected and fused into the RGB and Event CNN blocks, respectively, in an interactive manner using F2E and F2V modules. Similar operations are conducted for other CNN blocks to achieve adaptive fusion and local-global feature enhancement under different resolutions. Finally, we concatenate these three features and feed them into the classification head for pattern recognition. Extensive experiments on two large-scale RGB-Event benchmark datasets (PokerEvent and HARDVS) fully validated the effectiveness of our proposed TSCFormer. The source code and pre-trained models will be released at https://github.com/Event-AHU/TSCFormer.

Modeling Unknown Stochastic Dynamical System via Autoencoder

We present a numerical method to learn an accurate predictive model for an unknown stochastic dynamical system from its trajectory data. The method seeks to approximate the unknown flow map of the underlying system. It employs the idea of autoencoder to identify the unobserved latent random variables. In our approach, we design an encoding function to discover the latent variables, which are modeled as unit Gaussian, and a decoding function to reconstruct the future states of the system. Both the encoder and decoder are expressed as deep neural networks (DNNs). Once the DNNs are trained by the trajectory data, the decoder serves as a predictive model for the unknown stochastic system. Through an extensive set of numerical examples, we demonstrate that the method is able to produce long-term system predictions by using short bursts of trajectory data. It is also applicable to systems driven by non-Gaussian noises.

Cross-Dataset-Robust Method for Blind Real-World Image Quality Assessment

Although many effective models and real-world datasets have been presented for blind image quality assessment (BIQA), recent BIQA models usually tend to fit specific training set. Hence, it is still difficult to accurately and robustly measure the visual quality of an arbitrary real-world image. In this paper, a robust BIQA method, is designed based on three aspects, i.e., robust training strategy, large-scale real-world dataset, and powerful backbone. First, many individual models based on popular and state-of-the-art (SOTA) Swin-Transformer (SwinT) are trained on different real-world BIQA datasets respectively. Then, these biased SwinT-based models are jointly used to generate pseudo-labels, which adopts the probability of relative quality of two random images instead of fixed quality score. A large-scale real-world image dataset with 1,000,000 image pairs and pseudo-labels is then proposed for training the final cross-dataset-robust model. Experimental results on cross-dataset tests show that the performance of the proposed method is even better than some SOTA methods that are directly trained on these datasets, thus verifying the robustness and generalization of our method.

Towards Vehicle-to-everything Autonomous Driving: A Survey on Collaborative Perception

Vehicle-to-everything (V2X) autonomous driving opens up a promising direction for developing a new generation of intelligent transportation systems. Collaborative perception (CP) as an essential component to achieve V2X can overcome the inherent limitations of individual perception, including occlusion and long-range perception. In this survey, we provide a comprehensive review of CP methods for V2X scenarios, bringing a profound and in-depth understanding to the community. Specifically, we first introduce the architecture and workflow of typical V2X systems, which affords a broader perspective to understand the entire V2X system and the role of CP within it. Then, we thoroughly summarize and analyze existing V2X perception datasets and CP methods. Particularly, we introduce numerous CP methods from various crucial perspectives, including collaboration stages, roadside sensors placement, latency compensation, performance-bandwidth trade-off, attack/defense, pose alignment, etc. Moreover, we conduct extensive experimental analyses to compare and examine current CP methods, revealing some essential and unexplored insights. Specifically, we analyze the performance changes of different methods under different bandwidths, providing a deep insight into the performance-bandwidth trade-off issue. Also, we examine methods under different LiDAR ranges. To study the model robustness, we further investigate the effects of various simulated real-world noises on the performance of different CP methods, covering communication latency, lossy communication, localization errors, and mixed noises. In addition, we look into the sim-to-real generalization ability of existing CP methods. At last, we thoroughly discuss issues and challenges, highlighting promising directions for future efforts. Our codes for experimental analysis will be public at https://github.com/memberRE/Collaborative-Perception.

Supervised Auto-Encoding Twin-Bottleneck Hashing

Deep hashing has shown to be a complexity-efficient solution for the Approximate Nearest Neighbor search problem in high dimensional space. Many methods usually build the loss function from pairwise or triplet data points to capture the local similarity structure. Other existing methods construct the similarity graph and consider all points simultaneously. Auto-encoding Twin-bottleneck Hashing is one such method that dynamically builds the graph. Specifically, each input data is encoded into a binary code and a continuous variable, or the so-called twin bottlenecks. The similarity graph is then computed from these binary codes, which get updated consistently during the training. In this work, we generalize the original model into a supervised deep hashing network by incorporating the label information. In addition, we examine the differences of codes structure between these two networks and consider the class imbalance problem especially in multi-labeled datasets. Experiments on three datasets yield statistically significant improvement against the original model. Results are also comparable and competitive to other supervised methods.

Learning Stochastic Dynamical System via Flow Map Operator

We present a numerical framework for learning unknown stochastic dynamical systems using measurement data. Termed stochastic flow map learning (sFML), the new framework is an extension of flow map learning (FML) that was developed for learning deterministic dynamical systems. For learning stochastic systems, we define a stochastic flow map that is a superposition of two sub-flow maps: a deterministic sub-map and a stochastic sub-map. The stochastic training data are used to construct the deterministic sub-map first, followed by the stochastic sub-map. The deterministic sub-map takes the form of residual network (ResNet), similar to the work of FML for deterministic systems. For the stochastic sub-map, we employ a generative model, particularly generative adversarial networks (GANs) in this paper. The final constructed stochastic flow map then defines a stochastic evolution model that is a weak approximation, in term of distribution, of the unknown stochastic system. A comprehensive set of numerical examples are presented to demonstrate the flexibility and effectiveness of the proposed sFML method for various types of stochastic systems.

Deep Reinforcement Learning for Localizability-Enhanced Navigation in Dynamic Human Environments

Reliable localization is crucial for autonomous robots to navigate efficiently and safely. Some navigation methods can plan paths with high localizability (which describes the capability of acquiring reliable localization). By following these paths, the robot can access the sensor streams that facilitate more accurate location estimation results by the localization algorithms. However, most of these methods require prior knowledge and struggle to adapt to unseen scenarios or dynamic changes. To overcome these limitations, we propose a novel approach for localizability-enhanced navigation via deep reinforcement learning in dynamic human environments. Our proposed planner automatically extracts geometric features from 2D laser data that are helpful for localization. The planner learns to assign different importance to the geometric features and encourages the robot to navigate through areas that are helpful for laser localization. To facilitate the learning of the planner, we suggest two techniques: (1) an augmented state representation that considers the dynamic changes and the confidence of the localization results, which provides more information and allows the robot to make better decisions, (2) a reward metric that is capable to offer both sparse and dense feedback on behaviors that affect localization accuracy. Our method exhibits significant improvements in lost rate and arrival rate when tested in previously unseen environments.

Where is VALDO? VAscular Lesions Detection and segmentatiOn challenge at MICCAI 2021

Imaging markers of cerebral small vessel disease provide valuable information on brain health, but their manual assessment is time-consuming and hampered by substantial intra- and interrater variability. Automated rating may benefit biomedical research, as well as clinical assessment, but diagnostic reliability of existing algorithms is unknown. Here, we present the results of the \textit{VAscular Lesions DetectiOn and Segmentation} (\textit{Where is VALDO?}) challenge that was run as a satellite event at the international conference on Medical Image Computing and Computer Aided Intervention (MICCAI) 2021. This challenge aimed to promote the development of methods for automated detection and segmentation of small and sparse imaging markers of cerebral small vessel disease, namely enlarged perivascular spaces (EPVS) (Task 1), cerebral microbleeds (Task 2) and lacunes of presumed vascular origin (Task 3) while leveraging weak and noisy labels. Overall, 12 teams participated in the challenge proposing solutions for one or more tasks (4 for Task 1 - EPVS, 9 for Task 2 - Microbleeds and 6 for Task 3 - Lacunes). Multi-cohort data was used in both training and evaluation. Results showed a large variability in performance both across teams and across tasks, with promising results notably for Task 1 - EPVS and Task 2 - Microbleeds and not practically useful results yet for Task 3 - Lacunes. It also highlighted the performance inconsistency across cases that may deter use at an individual level, while still proving useful at a population level.

Multi-channel end-to-end neural network for speech enhancement, source localization, and voice activity detection

Speech enhancement and source localization has been active research for several decades with a wide range of real-world applications. Recently, the Deep Complex Convolution Recurrent network (DCCRN) has yielded impressive enhancement performance for single-channel systems. In this study, a neural beamformer consisting of a beamformer and a novel multi-channel DCCRN is proposed for speech enhancement and source localization. Complex-valued filters estimated by the multi-channel DCCRN serve as the weights of beamformer. In addition, a one-stage learning-based procedure is employed for speech enhancement and source localization. The proposed network composed of the multi-channel DCCRN and the auxiliary network models the sound field, while minimizing the distortionless response loss function. Simulation results show that the proposed neural beamformer is effective in enhancing speech signals, with speech quality well preserved. The proposed neural beamformer also provides source localization and voice activity detection (VAD) functions.