From Hypothesis to Publication: A Comprehensive Survey of AI-Driven Research Support Systems

Research is a fundamental process driving the advancement of human civilization, yet it demands substantial time and effort from researchers. In recent years, the rapid development of artificial intelligence (AI) technologies has inspired researchers to explore how AI can accelerate and enhance research. To monitor relevant advancements, this paper presents a systematic review of the progress in this domain. Specifically, we organize the relevant studies into three main categories: hypothesis formulation, hypothesis validation, and manuscript publication. Hypothesis formulation involves knowledge synthesis and hypothesis generation. Hypothesis validation includes the verification of scientific claims, theorem proving, and experiment validation. Manuscript publication encompasses manuscript writing and the peer review process. Furthermore, we identify and discuss the current challenges faced in these areas, as well as potential future directions for research. Finally, we also offer a comprehensive overview of existing benchmarks and tools across various domains that support the integration of AI into the research process. We hope this paper serves as an introduction for beginners and fosters future research. Resources have been made publicly available at https://github.com/zkzhou126/AI-for-Research.

Physics-informed DeepCT: Sinogram Wavelet Decomposition Meets Masked Diffusion

Diffusion model shows remarkable potential on sparse-view computed tomography (SVCT) reconstruction. However, when a network is trained on a limited sample space, its generalization capability may be constrained, which degrades performance on unfamiliar data. For image generation tasks, this can lead to issues such as blurry details and inconsistencies between regions. To alleviate this problem, we propose a Sinogram-based Wavelet random decomposition And Random mask diffusion Model (SWARM) for SVCT reconstruction. Specifically, introducing a random mask strategy in the sinogram effectively expands the limited training sample space. This enables the model to learn a broader range of data distributions, enhancing its understanding and generalization of data uncertainty. In addition, applying a random training strategy to the high-frequency components of the sinogram wavelet enhances feature representation and improves the ability to capture details in different frequency bands, thereby improving performance and robustness. Two-stage iterative reconstruction method is adopted to ensure the global consistency of the reconstructed image while refining its details. Experimental results demonstrate that SWARM outperforms competing approaches in both quantitative and qualitative performance across various datasets.

Discrete Modeling via Boundary Conditional Diffusion Processes

We present an novel framework for efficiently and effectively extending the powerful continuous diffusion processes to discrete modeling. Previous approaches have suffered from the discrepancy between discrete data and continuous modeling. Our study reveals that the absence of guidance from discrete boundaries in learning probability contours is one of the main reasons. To address this issue, we propose a two-step forward process that first estimates the boundary as a prior distribution and then rescales the forward trajectory to construct a boundary conditional diffusion model. The reverse process is proportionally adjusted to guarantee that the learned contours yield more precise discrete data. Experimental results indicate that our approach achieves strong performance in both language modeling and discrete image generation tasks. In language modeling, our approach surpasses previous state-of-the-art continuous diffusion language models in three translation tasks and a summarization task, while also demonstrating competitive performance compared to auto-regressive transformers. Moreover, our method achieves comparable results to continuous diffusion models when using discrete ordinal pixels and establishes a new state-of-the-art for categorical image generation on the Cifar-10 dataset.

ConvNeXt-backbone HoVerNet for nuclei segmentation and classification

This manuscript gives a brief description of the algorithm used to participate in CoNIC Challenge 2022. After the baseline was made available, we follow the method in it and replace the ResNet baseline with ConvNeXt one. Moreover, we propose to first convert RGB space to Haematoxylin-Eosin-DAB(HED) space, then use Haematoxylin composition of origin image to smooth semantic one hot label. Afterwards, nuclei distribution of train and valid set are explored to select the best fold split for training model for final test phase submission. Results on validation set shows that even with channel of each stage smaller in number, HoVerNet with ConvNeXt-tiny backbone still improves the mPQ+ by 0.04 and multi r2 by 0.0144