Ze Liu

Ze Liu, Zheng Zhang, Yue Cao et al.

Recently, directly detecting 3D objects from 3D point clouds has received increasing attention. To extract object representation from an irregular point cloud, existing methods usually take a point grouping step to assign the points to an object candidate so that a PointNet-like network could be used to derive object features from the grouped points. However, the inaccurate point assignments caused by the hand-crafted grouping scheme decrease the performance of 3D object detection. In this paper, we present a simple yet effective method for directly detecting 3D objects from the 3D point cloud. Instead of grouping local points to each object candidate, our method computes the feature of an object from all the points in the point cloud with the help of an attention mechanism in the Transformers \cite{vaswani2017attention}, where the contribution of each point is automatically learned in the network training. With an improved attention stacking scheme, our method fuses object features in different stages and generates more accurate object detection results. With few bells and whistles, the proposed method achieves state-of-the-art 3D object detection performance on two widely used benchmarks, ScanNet V2 and SUN RGB-D. The code and models are publicly available at \url{https://github.com/zeliu98/Group-Free-3D}

Guohao Wang, Ting Liu, Hongqiang Lyu et al.

As a prevalent and dynamically regulated epigenetic modification, 5-formylcytidine (f5C) is crucial in various biological processes. However, traditional experimental methods for f5C detection are often laborious and time-consuming, limiting their ability to map f5C sites across the transcriptome comprehensively. While computational approaches offer a cost-effective and high-throughput alternative, no recognition model for f5C has been developed to date. Drawing inspiration from language models in natural language processing, this study presents f5C-finder, an ensemble neural network-based model utilizing multi-head attention for the identification of f5C. Five distinct feature extraction methods were employed to construct five individual artificial neural networks, and these networks were subsequently integrated through ensemble learning to create f5C-finder. 10-fold cross-validation and independent tests demonstrate that f5C-finder achieves state-of-the-art (SOTA) performance with AUC of 0.807 and 0.827, respectively. The result highlights the effectiveness of biological language model in capturing both the order (sequential) and functional meaning (semantics) within genomes. Furthermore, the built-in interpretability allows us to understand what the model is learning, creating a bridge between identifying key sequential elements and a deeper exploration of their biological functions.