Publications by authors named "Junyi Shen"

Background: Our study aimed to combine the morphological behavior (tumor burden score, TBS) and the biological behavior (AFP and PIVKA-II) to predict the prognosis of HCC patients after radical liver resection.

Methods: A total of 1766 HCC patients were divided into the training cohort (n = 1079) and the validation cohort (n = 687) with a ratio of 6:4. The Kaplan-Meier method was used to analyze the recurrence-free (RFS) and overall survival (OS).

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This study explored sex differences between dietary inflammatory index (DII) and cancer prognosis and their mechanisms. We hypothesized that association between dietary inflammatory index and cancer prognosis differs by sex. The study included 2874 adults with cancer from the National Health and Nutrition Examination Survey covering 1999 to 2014.

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Recently, a multi-scale representation attention based deep multiple instance learning method has proposed to directly extract patch-level image features from gigapixel whole slide images (WSIs), and achieved promising performance on multiple popular WSI datasets. However, it still has two major limitations: (i) without considering the relations among patches, thereby possibly restricting the model performance; (ii) unable to handle retrieval tasks, which is very important in clinic diagnosis. To overcome these limitations, in this paper, we propose a novel end-to-end MIL-based deep hashing framework, which is composed of a multi-scale representation attention based deep network as the backbone, patch-based dynamic graphs and hashing encoding layers, to simultaneously handle classification and retrieval tasks.

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Chemokine (C-X3-C motif) Receptor 1 (CX3CR1) primarily mediates the chemotaxis and adhesion of immune cells. However, its role in hepatitis C virus (HCV)-induced early-stage liver cirrhosis remains unexplored. GSE15654 was downloaded from the GEO database.

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Introduction: Our study aimed to explore whether hepatitis B surface antigen (HBsAg) levels affected the role of nucleot(s)ide analog treatment (entecavir [ETV] and tenofovir disoproxil fumarate [TDF]) in improving the prognosis of patients with hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC) after liver resection.

Methods: A total of 865 patients with HBV-related HCC after hepatectomy treated with TDF or ETV were included in our study. Patients were divided into the high HBsAg cohort (n = 681) and the low HBsAg cohort (n = 184).

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Article Synopsis
  • Hepatitis C virus infection leads to liver inflammation and fibrosis, with SOX9 overexpression linked to the activation of liver cells involved in fibrosis progression.
  • Utilizing gene expression data from HCV patients, the study identified nine prognostic genes related to SOX9 that can predict disease outcomes, including both risk and protective factors.
  • The newly developed prognostic model significantly outperforms existing methods for predicting patient outcomes, offering a novel approach to managing liver fibrosis.
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Posttransplantation complications pose a major challenge to the long-term survival and quality of life of organ transplant recipients. These complications encompass immune-mediated complications, infectious complications, metabolic complications, and malignancies, with each type influenced by various risk factors and pathological mechanisms. The molecular mechanisms underlying posttransplantation complications involve a complex interplay of immunological, metabolic, and oncogenic processes, including innate and adaptive immune activation, immunosuppressant side effects, and viral reactivation.

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  • Nocardiosis is an infection caused by an aerobic gram-positive bacterium that typically affects immunocompromised individuals, but this report highlights two healthy patients with lymph node enlargement and fever who were diagnosed using advanced genetic testing.
  • The infections usually manifest in the lungs, skin, or central nervous system but can spread to other organs through the bloodstream.
  • The cases suggest that nocardiosis might be more common in healthy individuals than previously thought, and using Metagenomic Next-Generation Sequencing (mNGS) on lymph node tissue can accurately diagnose this condition when other tests fail.
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Background: Epilepsy is a major global health challenge, affecting approximately 50 million people across the globe and resulting in significant economic impacts on individuals and society. Oxidative stress is implicated in the pathogenesis of epilepsy, highlighting the potential of antioxidant-rich dietary patterns in offering preventive and protective benefits by mitigating oxidative stress. The Composite Dietary Antioxidant Index (CDAI) provides a measure for assessing dietary antioxidant intake, yet its link to epilepsy remains unexplored.

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Mesenchymal stem cells (MSCs) hold promise for regenerative medicine, particularly for bone tissue engineering. However, directing MSC differentiation towards specific lineages, such as osteogenic, while minimizing undesired phenotypes remains a challenge. Here, we investigate the influence of micropatterns on the behavior and lineage commitment of rat bone marrow-derived MSCs (rBMSCs), focusing on osteogenic differentiation.

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Background: The high recurrence rate after liver resection emphasizes the urgent need for neoadjuvant therapy in hepatocellular carcinoma (HCC) to enhance the overall prognosis for patients. Immune checkpoint inhibitors, camrelizumab combined with an anti-angiogenic tyrosine kinase inhibitor (TKI) apatinib, have emerged as a first-line treatment option for patients with unresectable HCC, yet its neoadjuvant application in combination with transarterial chemoembolization (TACE) in HCC remains unexplored. Therefore, this study aims to investigate the efficacy and safety of sequential TACE, camrelizumab, and apatinib as a neoadjuvant therapy for single, huge HCC.

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Background: The FDA's alerts regarding the T-cell lymphoma risk post CAR-T therapy has garnered global attention, yet a comprehensive profile of second primary malignancies (SPMs) following CAR-T treatment is lacking.

Methods: We extracted adverse event reports of hematological malignancies (HMs) patients with clearly definable SPMs from the FAERS and VigiBase databases (2017-2023). Disproportionality analysis using reporting odds ratio (ROR) and adjusted ROR was performed to assess associations between SPMs and CAR-T therapy.

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Background: As a fatal disease, cytokine storm has garnered research attention in recent years. Nonetheless, as the body of related studies expands, a thorough and impartial evaluation of the current status of research on cytokine storms remains absent. Consequently, this study aimed to thoroughly explore the research landscape and evolution of cytokine storm utilizing bibliometric and knowledge graph approaches.

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The mechanical environment of vascular endothelial cells (ECs) encompasses a wide range of curvatures due to variations in blood vessel diameters. Integrins, key mediators of cell-matrix interactions, establish connections between the extracellular matrix and the actin cytoskeleton, influencing diverse cellular behaviors. In this study, we explored the impact of spatial confinement on human umbilical vein ECs (HUVECs) cultured within three-dimensional hydrogel microgrooves of varying curvatures and the underlying role of integrins in mediating cellular responses.

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Article Synopsis
  • - Rheumatoid arthritis (RA) is a chronic autoimmune disease that leads to joint inflammation and damage, with recent research hinting at a connection to abnormal lactate metabolism.
  • - The study focused on identifying genes related to lactate metabolism (LMRGs) in RA by analyzing gene expression data from RA synovial tissue, employing techniques like functional enrichment analysis and machine learning for gene selection.
  • - Key genes identified include KCNN4 and SLC25A4, which may influence macrophage activity in RA's immune response, while GATA2 is linked to dendritic cell function, suggesting new diagnostic and treatment avenues based on lactate metabolism in RA.
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The present study is aimed to address the challenge of wound age estimation in forensic science by identifying reliable genetic markers using low-cost and high-precision second-generation sequencing technology. A total of 54 Sprague-Dawley rats were randomly assigned to a control group or injury groups, with injury groups being further divided into time points (4 h, 8 h, 12 h, 16 h, 20 h, 24 h, 28 h, and 32 h after injury, n = 6) to establish rat skeletal muscle contusion models. Gene expression data were obtained using second-generation sequencing technology, and differential gene expression analysis, weighted gene co-expression network analysis (WGCNA) and time-dependent expression trend analysis were performed.

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Objective: To construct microscale rectangular hydrogel grooves and to investigate the morphology and alignment of human umbilical vein endothelial cells (HUVECs) under spatial constraints. Vascular endothelial cell morphology and alignment are important factors in vascular development and the maintenance of homeostasis.

Methods: A 4-arm polyethylene glycol-acrylate (PEG-acrylate) hydrogel was used to fabricate rectangular microgrooves of the widths of 60 μm, 100 μm, and 140 μm.

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Background: Liver fibrosis contributes to significant morbidity and mortality in Western nations, primarily attributed to chronic hepatitis C virus (HCV) infection. Hypoxia and immune status have been reported to be significantly correlated with the progression of liver fibrosis. The current research aimed to investigate the gene signature related to the hypoxia-immune-related microenvironment and identify potential targets for liver fibrosis.

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  • Postmenopausal osteoporosis (PMOP) is often linked with iron overload, which worsens bone metabolism disorders; the study suggests that Ligustri Lucidi Fructus (FLL) and its wine-steamed variant (WFLL) can address both iron overload and PMOP simultaneously.
  • The research aimed to detail the molecular mechanisms through which WFLL down-regulates iron overload and improves bone metabolism, employing various advanced analytical techniques like HPLC and UPLC-Orbitrap-MS/MS for chemical profiling.
  • Results showed high similarity in chemical composition between FLL and WFLL, identifying 126 compounds and revealing changes in the ratio of key components during the steaming process, alongside validation of the proposed mechanisms using zebrafish and rat models
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Background: Many survivors of a first primary cancer (FPCs) are at risk of developing a second primary cancer (SPC), with effects on patient prognosis. Primary cancers have different frequencies of specific SPC development and the development of SPCs may be closely related to the FPC. The aim of this study was to explore possible correlations between SPCs and FPCs.

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Background: Disrupted sleep is believed to contribute to short- and long-term neurodevelopmental problems in very preterm infants (VPIs). This study presents a protocol for an evaluator-blinded, randomized crossover trial. It aims to assess the sleep efficiency of hospitalized VPIs by providing multisensory stimulation bundles.

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The Uncanny Valley hypothesis implies that people perceive a subjective border between human and robot faces. The robot-human border refers to the level of human-like features that distinguishes humans from robots. However, whether people's perceived anthropomorphism and robot-human borders are consistent across different robot occupations remains to be explored.

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Background: Portal hypertension combined with esophagogastric variceal bleeding (EGVB) is a serious complication in patients with hepatitis B virus (HBV)-related cirrhosis in China. Splenectomy plus pericardial devascularization (SPD) and transjugular intrahepatic portosystemic shunt (TIPS) are effective treatments for EGVB. However, a comparison of the effectiveness and safety of those methods is lacking.

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Organoids are three-dimensional structures formed by self-organizing growth of cells , which own many structures and functions similar with those of corresponding organs. Although the organoid culture technologies are rapidly developed and the original cells are abundant, the organoid cultured by current technologies are rather different with the real organs, which limits their application. The major challenges of organoid cultures are the immature tissue structure and restricted growth, both of which are caused by poor functional vasculature.

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