Yanfeng Liu

Zhitong Xiong, Yanfeng Liu, Qi Wang et al.

We present the RSSOD-Bench dataset for salient object detection (SOD) in optical remote sensing imagery. While SOD has achieved success in natural scene images with deep learning, research in SOD for remote sensing imagery (RSSOD) is still in its early stages. Existing RSSOD datasets have limitations in terms of scale, and scene categories, which make them misaligned with real-world applications. To address these shortcomings, we construct the RSSOD-Bench dataset, which contains images from four different cities in the USA. The dataset provides annotations for various salient object categories, such as buildings, lakes, rivers, highways, bridges, aircraft, ships, athletic fields, and more. The salient objects in RSSOD-Bench exhibit large-scale variations, cluttered backgrounds, and different seasons. Unlike existing datasets, RSSOD-Bench offers uniform distribution across scene categories. We benchmark 23 different state-of-the-art approaches from both the computer vision and remote sensing communities. Experimental results demonstrate that more research efforts are required for the RSSOD task.

Zhanglu Yan, Weiran Chu, Yuhua Sheng et al.

N-terminal coding sequence (NCS) influences gene expression by impacting the translation initiation rate. The NCS optimization problem is to find an NCS that maximizes gene expression. The problem is important in genetic engineering. However, current methods for NCS optimization such as rational design and statistics-guided approaches are labor-intensive yield only relatively small improvements. This paper introduces a deep learning/synthetic biology co-designed few-shot training workflow for NCS optimization. Our method utilizes k-nearest encoding followed by word2vec to encode the NCS, then performs feature extraction using attention mechanisms, before constructing a time-series network for predicting gene expression intensity, and finally a direct search algorithm identifies the optimal NCS with limited training data. We took green fluorescent protein (GFP) expressed by Bacillus subtilis as a reporting protein of NCSs, and employed the fluorescence enhancement factor as the metric of NCS optimization. Within just six iterative experiments, our model generated an NCS (MLD62) that increased average GFP expression by 5.41-fold, outperforming the state-of-the-art NCS designs. Extending our findings beyond GFP, we showed that our engineered NCS (MLD62) can effectively boost the production of N-acetylneuraminic acid by enhancing the expression of the crucial rate-limiting GNA1 gene, demonstrating its practical utility. We have open-sourced our NCS expression database and experimental procedures for public use.

Chengxi Ye, Grace Chu, Yanfeng Liu et al.

The discontinuous operations inherent in quantization and sparsification introduce a long-standing obstacle to backpropagation, particularly in ultra-low precision and sparse regimes. The standard Straight-Through Estimator (STE) is widely used to address this, but the well-understood mismatch between its quantization-aware forward pass and quantization-oblivious backward pass leads to unmanaged error that can corrupt the learning process. We solve this by introducing a denoising dequantization transform derived from a principled ridge regression objective. This transform makes the entire learning process aware of and robust to the quantization error that STE's surrogate gradient bypasses, by creating an explicit, corrective gradient path. We extend this principle to sparsification by viewing it as a special form of quantization that maps insignificant values to zero. Our unified framework allows existing models to be trained at a wide spectrum of precisions and sparsity levels with off-the-shelf recipes, achieving stable training of fully binary (A1W1) and sparse sub-1-bit networks where other methods falter. This approach yields state-of-the-art results and provides a theoretically-grounded path to hyper-efficient neural networks.

J. Brennan Peace, Eric Psota, Yanfeng Liu et al.

Existing fiducial markers solutions are designed for efficient detection and decoding, however, their ability to stand out in natural environments is difficult to infer from relatively limited analysis. Furthermore, worsening performance in challenging image capture scenarios - such as poor exposure, motion blur, and off-axis viewing - sheds light on their limitations. E2ETag introduces an end-to-end trainable method for designing fiducial markers and a complimentary detector. By introducing back-propagatable marker augmentation and superimposition into training, the method learns to generate markers that can be detected and classified in challenging real-world environments using a fully convolutional detector network. Results demonstrate that E2ETag outperforms existing methods in ideal conditions and performs much better in the presence of motion blur, contrast fluctuations, noise, and off-axis viewing angles. Source code and trained models are available at https://github.com/jbpeace/E2ETag.

Yanfeng Liu, Eric Psota, Lance Pérez

The proposed method extends upon the representational output of semantic instance segmentation by explicitly including both visible and occluded parts. A fully convolutional network is trained to produce consistent pixel-level embedding across two layers such that, when clustered, the results convey the full spatial extent and depth ordering of each instance. Results demonstrate that the network can accurately estimate complete masks in the presence of occlusion and outperform leading top-down bounding-box approaches. Source code available at https://github.com/yanfengliu/layered_embeddings

Chengxi Ye, Xiong Zhou, Tristan McKinney et al.

Inspired by two basic mechanisms in animal visual systems, we introduce a feature transform technique that imposes invariance properties in the training of deep neural networks. The resulting algorithm requires less parameter tuning, trains well with an initial learning rate 1.0, and easily generalizes to different tasks. We enforce scale invariance with local statistics in the data to align similar samples at diverse scales. To accelerate convergence, we enforce a GL(n)-invariance property with global statistics extracted from a batch such that the gradient descent solution should remain invariant under basis change. Profiling analysis shows our proposed modifications takes 5% of the computations of the underlying convolution layer. Tested on convolutional networks and transformer networks, our proposed technique requires fewer iterations to train, surpasses all baselines by a large margin, seamlessly works on both small and large batch size training, and applies to different computer vision and language tasks.