Multi-parametric mapping of MRI relaxations in liver has the potential of revealing pathological information of the liver. A self-supervised learning based multi-parametric mapping method is proposed to map T and T simultaneously, by utilising the relaxation constraint in the learning process. Data noise of different mapping tasks is utilised to make the model uncertainty-aware, which adaptively weight different mapping tasks during learning. The method was examined on a dataset of 51 patients with non-alcoholic fatter liver disease. Results showed that the proposed method can produce comparable parametric maps to the traditional multi-contrast pixel wise fitting method, with a reduced number of images and less computation time. The uncertainty weighting also improves the model performance. It has the potential of accelerating MRI quantitative imaging.
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http://dx.doi.org/10.1109/EMBC40787.2023.10340640 | DOI Listing |
Comput Med Imaging Graph
December 2024
Department of Radiology, The First Affiliated Hospital, Dalian Medical University, China; Dalian Engineering Research Center for Artificial Intelligence in Medical Imaging, China. Electronic address:
Surgical resection stands as the primary treatment option for early-stage hepatocellular carcinoma (HCC) patients. Postoperative early recurrence (ER) is a significant factor contributing to the mortality of HCC patients. Therefore, accurately predicting the risk of ER after curative resection is crucial for clinical decision-making and improving patient prognosis.
View Article and Find Full Text PDFCommun Biol
September 2024
Henan Key Laboratory for Pharmacology of Liver Diseases, BGI College & Henan Institute of Medical and Pharmaceutical Sciences, Zhengzhou University, Zhengzhou, China.
Spatial transcriptomics (ST) technologies allow for comprehensive characterization of gene expression patterns in the context of tissue microenvironment. However, accurately identifying domains with spatial coherence in both gene expression and histology in situ and effectively integrating data from multi-sample remains challenging. Here, we propose ResST, a graph self-supervised residual learning model based on graph neural network and Margin Disparity Discrepancy (MDD) theory.
View Article and Find Full Text PDFNat Commun
June 2024
Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen N, Denmark.
Imputation techniques provide means to replace missing measurements with a value and are used in almost all downstream analysis of mass spectrometry (MS) based proteomics data using label-free quantification (LFQ). Here we demonstrate how collaborative filtering, denoising autoencoders, and variational autoencoders can impute missing values in the context of LFQ at different levels. We applied our method, proteomics imputation modeling mass spectrometry (PIMMS), to an alcohol-related liver disease (ALD) cohort with blood plasma proteomics data available for 358 individuals.
View Article and Find Full Text PDFbioRxiv
May 2024
Department of Statistics and Data Science, Yale University, New Haven, CT, United States.
Cell population delineation and identification is an essential step in single-cell and spatial-omics studies. Spatial-omics technologies can simultaneously measure information from three complementary domains related to this task: expression levels of a panel of molecular biomarkers at single-cell resolution, relative positions of cells, and images of tissue sections, but existing computational methods for performing this task on single-cell spatial-omics datasets often relinquish information from one or more domains. The additional reliance on the availability of "atlas" training or reference datasets limits cell type discovery to well-defined but limited cell population labels, thus posing major challenges for using these methods in practice.
View Article and Find Full Text PDFCancer Imaging
February 2024
Department of Computer and Data Sciences, Faculty of Mathematical Sciences, Shahid Beheshti University, Tehran, Iran.
Background: Prostate-specific membrane antigen (PSMA) PET/CT imaging is widely used for quantitative image analysis, especially in radioligand therapy (RLT) for metastatic castration-resistant prostate cancer (mCRPC). Unknown features influencing PSMA biodistribution can be explored by analyzing segmented organs at risk (OAR) and lesions. Manual segmentation is time-consuming and labor-intensive, so automated segmentation methods are desirable.
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