Tokenizing Electron Cloud in Protein-Ligand Interaction Learning

The affinity and specificity of protein-molecule binding directly impact functional outcomes, uncovering the mechanisms underlying biological regulation and signal transduction. Most deep-learning-based prediction approaches focus on structures of atoms or fragments. However, quantum chemical properties, such as electronic structures, are the key to unveiling interaction patterns but remain largely underexplored. To bridge this gap, we propose ECBind, a method for tokenizing electron cloud signals into quantized embeddings, enabling their integration into downstream tasks such as binding affinity prediction. By incorporating electron densities, ECBind helps uncover binding modes that cannot be fully represented by atom-level models. Specifically, to remove the redundancy inherent in electron cloud signals, a structure-aware transformer and hierarchical codebooks encode 3D binding sites enriched with electron structures into tokens. These tokenized codes are then used for specific tasks with labels. To extend its applicability to a wider range of scenarios, we utilize knowledge distillation to develop an electron-cloud-agnostic prediction model. Experimentally, ECBind demonstrates state-of-the-art performance across multiple tasks, achieving improvements of 6.42\% and 15.58\% in per-structure Pearson and Spearman correlation coefficients, respectively.

FocusChat: Text-guided Long Video Understanding via Spatiotemporal Information Filtering

Recently, multi-modal large language models have made significant progress. However, visual information lacking of guidance from the user's intention may lead to redundant computation and involve unnecessary visual noise, especially in long, untrimmed videos. To address this issue, we propose FocusChat, a text-guided multi-modal large language model (LLM) that emphasizes visual information correlated to the user's prompt. In detail, Our model first undergoes the semantic extraction module, which comprises a visual semantic branch and a text semantic branch to extract image and text semantics, respectively. The two branches are combined using the Spatial-Temporal Filtering Module (STFM). STFM enables explicit spatial-level information filtering and implicit temporal-level feature filtering, ensuring that the visual tokens are closely aligned with the user's query. It lowers the essential number of visual tokens inputted into the LLM. FocusChat significantly outperforms Video-LLaMA in zero-shot experiments, using an order of magnitude less training data with only 16 visual tokens occupied. It achieves results comparable to the state-of-the-art in few-shot experiments, with only 0.72M pre-training data.

FDCE-Net: Underwater Image Enhancement with Embedding Frequency and Dual Color Encoder

Underwater images often suffer from various issues such as low brightness, color shift, blurred details, and noise due to light absorption and scattering caused by water and suspended particles. Previous underwater image enhancement (UIE) methods have primarily focused on spatial domain enhancement, neglecting the frequency domain information inherent in the images. However, the degradation factors of underwater images are closely intertwined in the spatial domain. Although certain methods focus on enhancing images in the frequency domain, they overlook the inherent relationship between the image degradation factors and the information present in the frequency domain. As a result, these methods frequently enhance certain attributes of the improved image while inadequately addressing or even exacerbating other attributes. Moreover, many existing methods heavily rely on prior knowledge to address color shift problems in underwater images, limiting their flexibility and robustness. In order to overcome these limitations, we propose the Embedding Frequency and Dual Color Encoder Network (FDCE-Net) in our paper. The FDCE-Net consists of two main structures: (1) Frequency Spatial Network (FS-Net) aims to achieve initial enhancement by utilizing our designed Frequency Spatial Residual Block (FSRB) to decouple image degradation factors in the frequency domain and enhance different attributes separately. (2) To tackle the color shift issue, we introduce the Dual-Color Encoder (DCE). The DCE establishes correlations between color and semantic representations through cross-attention and leverages multi-scale image features to guide the optimization of adaptive color query. The final enhanced images are generated by combining the outputs of FS-Net and DCE through a fusion network. These images exhibit rich details, clear textures, low noise and natural colors.

High-speed real-time single-pixel microscopy based on Fourier sampling

Single-pixel cameras based on the concepts of compressed sensing (CS) leverage the inherent structure of images to retrieve them with far fewer measurements and operate efficiently over a significantly broader spectral range than conventional silicon-based cameras. Recently, photonic time-stretch (PTS) technique facilitates the emergence of high-speed single-pixel cameras. A significant breakthrough in imaging speed of single-pixel cameras enables observation of fast dynamic phenomena. However, according to CS theory, image reconstruction is an iterative process that consumes enormous amounts of computational time and cannot be performed in real time. To address this challenge, we propose a novel single-pixel imaging technique that can produce high-quality images through rapid acquisition of their effective spatial Fourier spectrum. We employ phase-shifting sinusoidal structured illumination instead of random illumination for spectrum acquisition and apply inverse Fourier transform to the obtained spectrum for image restoration. We evaluate the performance of our prototype system by recognizing quick response (QR) codes and flow cytometric screening of cells. A frame rate of 625 kHz and a compression ratio of 10% are experimentally demonstrated in accordance with the recognition rate of the QR code. An imaging flow cytometer enabling high-content screening with an unprecedented throughput of 100,000 cells/s is also demonstrated. For real-time imaging applications, the proposed single-pixel microscope can significantly reduce the time required for image reconstruction by two orders of magnitude, which can be widely applied in industrial quality control and label-free biomedical imaging.