Jing Yuan

Liangyu Zha, Junlin Zhou, Liyao Li et al.

Tables are prevalent in real-world databases, requiring significant time and effort for humans to analyze and manipulate. The advancements in large language models (LLMs) have made it possible to interact with tables using natural language input, bringing this capability closer to reality. In this paper, we present TableGPT, a unified fine-tuned framework that enables LLMs to understand and operate on tables using external functional commands. It introduces the capability to seamlessly interact with tables, enabling a wide range of functionalities such as question answering, data manipulation (e.g., insert, delete, query, and modify operations), data visualization, analysis report generation, and automated prediction. TableGPT aims to provide convenience and accessibility to users by empowering them to effortlessly leverage tabular data. At the core of TableGPT lies the novel concept of global tabular representations, which empowers LLMs to gain a comprehensive understanding of the entire table beyond meta-information. By jointly training LLMs on both table and text modalities, TableGPT achieves a deep understanding of tabular data and the ability to perform complex operations on tables through chain-of-command instructions. Importantly, TableGPT offers the advantage of being a self-contained system rather than relying on external API interfaces. Moreover, it supports efficient data process flow, query rejection (when appropriate) and private deployment, enabling faster domain data fine-tuning and ensuring data privacy, which enhances the framework's adaptability to specific use cases.

Zhe Wang, Hongsheng Li, Qinwei Zhang et al.

Magnetic Resonance Fingerprinting (MRF) is a novel technique that simultaneously estimates multiple tissue-related parameters, such as the longitudinal relaxation time T1, the transverse relaxation time T2, off resonance frequency B0 and proton density, from a scanned object in just tens of seconds. However, the MRF method suffers from aliasing artifacts because it significantly undersamples the k-space data. In this work, we propose a compressed sensing (CS) framework for simultaneously estimating multiple tissue-related parameters based on the MRF method. It is more robust to low sampling ratio and is therefore more efficient in estimating MR parameters for all voxels of an object. Furthermore, the MRF method requires identifying the nearest atoms of the query fingerprints from the MR-signal-evolution dictionary with the L2 distance. However, we observed that the L2 distance is not always a proper metric to measure the similarities between MR Fingerprints. Adaptively learning a distance metric from the undersampled training data can significantly improve the matching accuracy of the query fingerprints. Numerical results on extensive simulated cases show that our method substantially outperforms stateof-the-art methods in terms of accuracy of parameter estimation.

Guangyu Ren, Michalis Lazarou, Jing Yuan et al.

Polyp segmentation is a crucial step towards computer-aided diagnosis of colorectal cancer. However, most of the polyp segmentation methods require pixel-wise annotated datasets. Annotated datasets are tedious and time-consuming to produce, especially for physicians who must dedicate their time to their patients. We tackle this issue by proposing a novel framework that can be trained using only weakly annotated images along with exploiting unlabeled images. To this end, we propose three ideas to address this problem, more specifically our contributions are: 1) a novel sparse foreground loss that suppresses false positives and improves weakly-supervised training, 2) a batch-wise weighted consistency loss utilizing predicted segmentation maps from identical networks trained using different initialization during semi-supervised training, 3) a deformable transformer encoder neck for feature enhancement by fusing information across levels and flexible spatial locations. Extensive experimental results demonstrate the merits of our ideas on five challenging datasets outperforming some state-of-the-art fully supervised models. Also, our framework can be utilized to fine-tune models trained on natural image segmentation datasets drastically improving their performance for polyp segmentation and impressively demonstrating superior performance to fully supervised fine-tuning.

Jose Dolz, Christian Desrosiers, Li Wang et al.

Precise 3D segmentation of infant brain tissues is an essential step towards comprehensive volumetric studies and quantitative analysis of early brain developement. However, computing such segmentations is very challenging, especially for 6-month infant brain, due to the poor image quality, among other difficulties inherent to infant brain MRI, e.g., the isointense contrast between white and gray matter and the severe partial volume effect due to small brain sizes. This study investigates the problem with an ensemble of semi-dense fully convolutional neural networks (CNNs), which employs T1-weighted and T2-weighted MR images as input. We demonstrate that the ensemble agreement is highly correlated with the segmentation errors. Therefore, our method provides measures that can guide local user corrections. To the best of our knowledge, this work is the first ensemble of 3D CNNs for suggesting annotations within images. Furthermore, inspired by the very recent success of dense networks, we propose a novel architecture, SemiDenseNet, which connects all convolutional layers directly to the end of the network. Our architecture allows the efficient propagation of gradients during training, while limiting the number of parameters, requiring one order of magnitude less parameters than popular medical image segmentation networks such as 3D U-Net. Another contribution of our work is the study of the impact that early or late fusions of multiple image modalities might have on the performances of deep architectures. We report evaluations of our method on the public data of the MICCAI iSEG-2017 Challenge on 6-month infant brain MRI segmentation, and show very competitive results among 21 teams, ranking first or second in most metrics.