Shengyuan Zhou

Yuhang Yang, Yonggan Bu, Shengyuan Zhou et al.

Spatial Transcriptomics (ST) measures gene expression while preserving spatial context, but its high cost and low throughput leave public datasets small. Inferring expression directly from widely available Hematoxylin and Eosin (H&E) stained histology offers a cost-effective alternative. However, existing approaches face several limitations: regression methods over-smooth toward the conditional mean, while generative methods are faithful but require slow multi-step inference; most methods treat genes as independent and equally important, ignoring inter-gene dependencies and heterogeneous gene informativeness; and most are tailored to a single resolution, either spot-level or cell-level. To address these issues, we propose DriftST, a unified framework for inferring spatially resolved gene expression from H&E images. DriftST builds on a Cellular Drifting generative model that learns a direct drift from a histology-conditioned source to the expression distribution, retaining generative expressiveness while enabling efficient one-step generation. To capture gene structure, we introduce the STransformer, which combines a co-expression attention module for inter-gene dependencies with a gene residual gate for differential gene importance. Operating on a generic gene-panel representation, DriftST applies directly to both spot-level and cell-level data in one framework, and extensive experiments across diverse tissues and platforms show that it achieves state-of-the-art performance at both resolutions.

Jinhua Tao, Zidong Du, Qi Guo et al.

The increasing attention on deep learning has tremendously spurred the design of intelligence processing hardware. The variety of emerging intelligence processors requires standard benchmarks for fair comparison and system optimization (in both software and hardware). However, existing benchmarks are unsuitable for benchmarking intelligence processors due to their non-diversity and nonrepresentativeness. Also, the lack of a standard benchmarking methodology further exacerbates this problem. In this paper, we propose BENCHIP, a benchmark suite and benchmarking methodology for intelligence processors. The benchmark suite in BENCHIP consists of two sets of benchmarks: microbenchmarks and macrobenchmarks. The microbenchmarks consist of single-layer networks. They are mainly designed for bottleneck analysis and system optimization. The macrobenchmarks contain state-of-the-art industrial networks, so as to offer a realistic comparison of different platforms. We also propose a standard benchmarking methodology built upon an industrial software stack and evaluation metrics that comprehensively reflect the various characteristics of the evaluated intelligence processors. BENCHIP is utilized for evaluating various hardware platforms, including CPUs, GPUs, and accelerators. BENCHIP will be open-sourced soon.

Ziyuan Zhao, Fangcheng Zhou, Zeng Zeng et al.

Domain shift and label scarcity heavily limit deep learning applications to various medical image analysis tasks. Unsupervised domain adaptation (UDA) techniques have recently achieved promising cross-modality medical image segmentation by transferring knowledge from a label-rich source domain to an unlabeled target domain. However, it is also difficult to collect annotations from the source domain in many clinical applications, rendering most prior works suboptimal with the label-scarce source domain, particularly for few-shot scenarios, where only a few source labels are accessible. To achieve efficient few-shot cross-modality segmentation, we propose a novel transformation-consistent meta-hallucination framework, meta-hallucinator, with the goal of learning to diversify data distributions and generate useful examples for enhancing cross-modality performance. In our framework, hallucination and segmentation models are jointly trained with the gradient-based meta-learning strategy to synthesize examples that lead to good segmentation performance on the target domain. To further facilitate data hallucination and cross-domain knowledge transfer, we develop a self-ensembling model with a hallucination-consistent property. Our meta-hallucinator can seamlessly collaborate with the meta-segmenter for learning to hallucinate with mutual benefits from a combined view of meta-learning and self-ensembling learning. Extensive studies on MM-WHS 2017 dataset for cross-modality cardiac segmentation demonstrate that our method performs favorably against various approaches by a lot in the few-shot UDA scenario.