Sequence-Based Nanobody-Antigen Binding Prediction

Nanobodies (Nb) are monomeric heavy-chain fragments derived from heavy-chain only antibodies naturally found in Camelids and Sharks. Their considerably small size (~3-4 nm; 13 kDa) and favorable biophysical properties make them attractive targets for recombinant production. Furthermore, their unique ability to bind selectively to specific antigens, such as toxins, chemicals, bacteria, and viruses, makes them powerful tools in cell biology, structural biology, medical diagnostics, and future therapeutic agents in treating cancer and other serious illnesses. However, a critical challenge in nanobodies production is the unavailability of nanobodies for a majority of antigens. Although some computational methods have been proposed to screen potential nanobodies for given target antigens, their practical application is highly restricted due to their reliance on 3D structures. Moreover, predicting nanobodyantigen interactions (binding) is a time-consuming and labor-intensive task. This study aims to develop a machine-learning method to predict Nanobody-Antigen binding solely based on the sequence data. We curated a comprehensive dataset of Nanobody-Antigen binding and nonbinding data and devised an embedding method based on gapped k-mers to predict binding based only on sequences of nanobody and antigen. Our approach achieves up to 90% accuracy in binding prediction and is significantly more efficient compared to the widely-used computational docking technique.

Hiding in Plain Sight: Differential Privacy Noise Exploitation for Evasion-resilient Localized Poisoning Attacks in Multiagent Reinforcement Learning

Lately, differential privacy (DP) has been introduced in cooperative multiagent reinforcement learning (CMARL) to safeguard the agents' privacy against adversarial inference during knowledge sharing. Nevertheless, we argue that the noise introduced by DP mechanisms may inadvertently give rise to a novel poisoning threat, specifically in the context of private knowledge sharing during CMARL, which remains unexplored in the literature. To address this shortcoming, we present an adaptive, privacy-exploiting, and evasion-resilient localized poisoning attack (PeLPA) that capitalizes on the inherent DP-noise to circumvent anomaly detection systems and hinder the optimal convergence of the CMARL model. We rigorously evaluate our proposed PeLPA attack in diverse environments, encompassing both non-adversarial and multiple-adversarial contexts. Our findings reveal that, in a medium-scale environment, the PeLPA attack with attacker ratios of 20% and 40% can lead to an increase in average steps to goal by 50.69% and 64.41%, respectively. Furthermore, under similar conditions, PeLPA can result in a 1.4x and 1.6x computational time increase in optimal reward attainment and a 1.18x and 1.38x slower convergence for attacker ratios of 20% and 40%, respectively.

Efficient Task Offloading Algorithm for Digital Twin in Edge/Cloud Computing Environment

In the era of Internet of Things (IoT), Digital Twin (DT) is envisioned to empower various areas as a bridge between physical objects and the digital world. Through virtualization and simulation techniques, multiple functions can be achieved by leveraging computing resources. In this process, Mobile Cloud Computing (MCC) and Mobile Edge Computing (MEC) have become two of the key factors to achieve real-time feedback. However, current works only considered edge servers or cloud servers in the DT system models. Besides, The models ignore the DT with not only one data resource. In this paper, we propose a new DT system model considering a heterogeneous MEC/MCC environment. Each DT in the model is maintained in one of the servers via multiple data collection devices. The offloading decision-making problem is also considered and a new offloading scheme is proposed based on Distributed Deep Learning (DDL). Simulation results demonstrate that our proposed algorithm can effectively and efficiently decrease the system's average latency and energy consumption. Significant improvement is achieved compared with the baselines under the dynamic environment of DTs.

Guided Linear Upsampling

Guided upsampling is an effective approach for accelerating high-resolution image processing. In this paper, we propose a simple yet effective guided upsampling method. Each pixel in the high-resolution image is represented as a linear interpolation of two low-resolution pixels, whose indices and weights are optimized to minimize the upsampling error. The downsampling can be jointly optimized in order to prevent missing small isolated regions. Our method can be derived from the color line model and local color transformations. Compared to previous methods, our method can better preserve detail effects while suppressing artifacts such as bleeding and blurring. It is efficient, easy to implement, and free of sensitive parameters. We evaluate the proposed method with a wide range of image operators, and show its advantages through quantitative and qualitative analysis. We demonstrate the advantages of our method for both interactive image editing and real-time high-resolution video processing. In particular, for interactive editing, the joint optimization can be precomputed, thus allowing for instant feedback without hardware acceleration.

Blocks2World: Controlling Realistic Scenes with Editable Primitives

We present Blocks2World, a novel method for 3D scene rendering and editing that leverages a two-step process: convex decomposition of images and conditioned synthesis. Our technique begins by extracting 3D parallelepipeds from various objects in a given scene using convex decomposition, thus obtaining a primitive representation of the scene. These primitives are then utilized to generate paired data through simple ray-traced depth maps. The next stage involves training a conditioned model that learns to generate images from the 2D-rendered convex primitives. This step establishes a direct mapping between the 3D model and its 2D representation, effectively learning the transition from a 3D model to an image. Once the model is fully trained, it offers remarkable control over the synthesis of novel and edited scenes. This is achieved by manipulating the primitives at test time, including translating or adding them, thereby enabling a highly customizable scene rendering process. Our method provides a fresh perspective on 3D scene rendering and editing, offering control and flexibility. It opens up new avenues for research and applications in the field, including authoring and data augmentation.

SecureFalcon: The Next Cyber Reasoning System for Cyber Security

Software vulnerabilities leading to various detriments such as crashes, data loss, and security breaches, significantly hinder the quality, affecting the market adoption of software applications and systems. Although traditional methods such as automated software testing, fault localization, and repair have been intensively studied, static analysis tools are most commonly used and have an inherent false positives rate, posing a solid challenge to developer productivity. Large Language Models (LLMs) offer a promising solution to these persistent issues. Among these, FalconLLM has shown substantial potential in identifying intricate patterns and complex vulnerabilities, hence crucial in software vulnerability detection. In this paper, for the first time, FalconLLM is being fine-tuned for cybersecurity applications, thus introducing SecureFalcon, an innovative model architecture built upon FalconLLM. SecureFalcon is trained to differentiate between vulnerable and non-vulnerable C code samples. We build a new training dataset, FormAI, constructed thanks to Generative Artificial Intelligence (AI) and formal verification to evaluate its performance. SecureFalcon achieved an impressive 94% accuracy rate in detecting software vulnerabilities, emphasizing its significant potential to redefine software vulnerability detection methods in cybersecurity.

New bootstrap tests for categorical time series. A comparative study

The problem of testing the equality of the generating processes of two categorical time series is addressed in this work. To this aim, we propose three tests relying on a dissimilarity measure between categorical processes. Particular versions of these tests are constructed by considering three specific distances evaluating discrepancy between the marginal distributions and the serial dependence patterns of both processes. Proper estimates of these dissimilarities are an essential element of the constructed tests, which are based on the bootstrap. Specifically, a parametric bootstrap method assuming the true generating models and extensions of the moving blocks bootstrap and the stationary bootstrap are considered. The approaches are assessed in a broad simulation study including several types of categorical models with different degrees of complexity. Advantages and disadvantages of each one of the methods are properly discussed according to their behavior under the null and the alternative hypothesis. The impact that some important input parameters have on the results of the tests is also analyzed. An application involving biological sequences highlights the usefulness of the proposed techniques.

Benchmarks and Custom Package for Electrical Load Forecasting

Load forecasting is of great significance in the power industry as it can provide a reference for subsequent tasks such as power grid dispatch, thus bringing huge economic benefits. However, there are many differences between load forecasting and traditional time series forecasting. On the one hand, load forecasting aims to minimize the cost of subsequent tasks such as power grid dispatch, rather than simply pursuing prediction accuracy. On the other hand, the load is largely influenced by many external factors, such as temperature or calendar variables. In addition, the scale of predictions (such as building-level loads and aggregated-level loads) can also significantly impact the predicted results. In this paper, we provide a comprehensive load forecasting archive, which includes load domain-specific feature engineering to help forecasting models better model load data. In addition, different from the traditional loss function which only aims for accuracy, we also provide a method to customize the loss function based on the forecasting error, integrating it into our forecasting framework. Based on this, we conducted extensive experiments on load data at different levels, providing a reference for researchers to compare different load forecasting models.

Reconstruction of 3-Axis Seismocardiogram from Right-to-left and Head-to-foot Components Using A Long Short-Term Memory Network

This pilot study aims to develop a deep learning model for predicting seismocardiogram (SCG) signals in the dorsoventral direction from the SCG signals in the right-to-left and head-to-foot directions ($\textrm{SCG}_x$ and $\textrm{SCG}_y$). The dataset used for the training and validation of the model was obtained from 15 healthy adult subjects. The SCG signals were recorded using tri-axial accelerometers placed on the chest of each subject. The signals were then segmented using electrocardiogram R waves, and the segments were downsampled, normalized, and centered around zero. The resulting dataset was used to train and validate a long short-term memory (LSTM) network with two layers and a dropout layer to prevent overfitting. The network took as input 100-time steps of $\textrm{SCG}_x$ and $\textrm{SCG}_y$, representing one cardiac cycle, and outputted a vector that mapped to the target variable being predicted. The results showed that the LSTM model had a mean square error of 0.09 between the predicted and actual SCG segments in the dorsoventral direction. The study demonstrates the potential of deep learning models for reconstructing 3-axis SCG signals using the data obtained from dual-axis accelerometers.

Multimodal Distillation for Egocentric Action Recognition

The focal point of egocentric video understanding is modelling hand-object interactions. Standard models, e.g. CNNs or Vision Transformers, which receive RGB frames as input perform well. However, their performance improves further by employing additional input modalities that provide complementary cues, such as object detections, optical flow, audio, etc. The added complexity of the modality-specific modules, on the other hand, makes these models impractical for deployment. The goal of this work is to retain the performance of such a multimodal approach, while using only the RGB frames as input at inference time. We demonstrate that for egocentric action recognition on the Epic-Kitchens and the Something-Something datasets, students which are taught by multimodal teachers tend to be more accurate and better calibrated than architecturally equivalent models trained on ground truth labels in a unimodal or multimodal fashion. We further adopt a principled multimodal knowledge distillation framework, allowing us to deal with issues which occur when applying multimodal knowledge distillation in a naive manner. Lastly, we demonstrate the achieved reduction in computational complexity, and show that our approach maintains higher performance with the reduction of the number of input views.