Publications by authors named "YiFan Jiang"

Ferns, known for their adaptability and widespread presence, form a diverse group of plants. However, the mechanisms underlying terpenoid production, which are often linked to plant adaptation, are not well understood in ferns. Here, we report that Dryopteris fragrans (D.

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Purpose: In the context of lung cancer screening, the scarcity of well-labeled medical images poses a significant challenge to implement supervised learning-based deep learning methods. While data augmentation is an effective technique for countering the difficulties caused by insufficient data, it has not been fully explored in the context of lung cancer screening. In this research study, we analyzed the state-of-the-art (SOTA) data augmentation techniques for lung cancer binary prediction.

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Loop-extrusion machinery, comprising the cohesin complex and CCCTC-binding factor CTCF, organizes the interphase chromosomes into topologically associating domains (TADs) and loops, but acute depletion of components of this machinery results in variable transcriptional changes in different cell types, highlighting the complex relationship between chromatin organization and gene regulation. Here, we systematically investigated the role of 3D genome architecture in gene regulation in mouse embryonic stem cells under various perturbation conditions. We found that acute depletion of cohesin or CTCF disrupts the formation of TADs, but affects gene regulation in a gene-specific and context-dependent manner.

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Background: Calcium-regulated heat-stable protein 1 (CARHSP1) has been identified as a cold shock domain (CSD) protein family member, participating in the regulation of ribosomal translation, mRNA degradation, and the rate of transcription termination. However, there is an extremely limited understanding of the function of CARHSP1 as an RNA binding protein (RBP) in prostate cancer (PCa).

Methods: The expression pattern of CARHSP1 and the correlation between the CARHSP1 expression and clinical prognosis in PCa patients were analyzed by using multiple public databases.

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Mn (d) in manganese-based Prussian blue analogues (MnPBA) exhibits intrinsic orbital degeneracy upon sodiation/desodiation, resulting in severe Jahn-Teller distortion, which usually causes rapid capacity decay and sluggish kinetics. Unfortunately, traditional modification strategies are insufficient for electronic tuning of Mn to mitigate these issues. Herein, Intervalence Charge Transfer (IVCT) of manganese and iron to vanadium ions is unraveled in a series of novel V-substituted MnPBA to enhance electrochemical reaction reversibility and kinetics.

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Background: Depression has been linked to disruptions in resting-state networks (RSNs). However, inconsistent findings on RSN disruptions, with variations in reported connectivity within and between RSNs, complicate the understanding of the neurobiological mechanisms underlying depression.

Methods: A systematic literature search of PubMed and Web of Science identified studies that employed resting-state functional magnetic resonance imaging (fMRI) to explore RSN changes in depression.

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Intrahepatic cholangiocarcinoma (ICC) is an aggressive cancer with an extremely poor prognosis, highlighting the urgent need for new treatment options. Recent studies increasingly suggest that the Forkhead box M1 (FOXM1) transcription factor may serve as a candidate target for cancer immunotherapy. However, its role and the underlying molecular mechanisms in ICC remain not fully understood.

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In the field of industrial measurement, capturing a three-dimensional (3D) profile of an annular inner-wall has been a significant challenge. Current methods typically require multiple scans using a 3D scanner or circular structured light technique, which are inefficient and inconvenient to use. To address this issue, an off-axis measurement method and corresponding system has been proposed in this paper based on circular fringe projection.

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Background: Altered metabolism has become an important characteristic of cancer, and acyl-CoA dehydrogenase short-chain (ACADS), a regulator of lipid synthesis, is involved in carcinogenesis-associated metabolic pathways. DNA methylation is an important mechanism for silencing ACADS in various malignancies. However, the specific role of ACADS in hepatocellular carcinoma (HCC) pathogenesis remains poorly understood.

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Article Synopsis
  • Understanding the associations between traits and microbial composition is critical for microbiome research, but machine learning models often struggle due to the data's high-dimensional, compositional, and imbalanced nature.
  • To tackle these challenges, a new data augmentation method called PhyloMix has been developed, which uses phylogenetic relationships to generate synthetic microbial samples that enhance model performance.
  • PhyloMix significantly outperforms other data augmentation techniques and is effective in both supervised learning and contrastive representation learning, demonstrating its broad applicability in microbiome studies.
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  • Deep learning methods show strong potential for predicting lung cancer risk from CT scans, but there's a need for more comprehensive comparisons and validations of these models in real-world settings.
  • The study reviews 21 state-of-the-art deep learning models, analyzing their performance using CT scans from a subset of the National Lung Screening Trial, with a focus on malignant versus benign classification.
  • Results reveal that 3D deep learning models generally outperformed 2D models, with the best 3D model achieving an AUROC of 0.86 compared to 0.79 for the best 2D model, emphasizing the need to choose appropriate pretrained datasets and model types for effective lung cancer risk prediction.
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Mesenchymal stem cells (MSCs) are a class of protocells that can differentiate into various cell types and have robust replication and renewal capabilities. MSCs secrete various nutritional factors to regulate the microenvironment of tumor tissues. The mechanism by which they inhibit or promote tumor growth may be closely related to MSC-derived exosomes (MSC-Exo).

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  • This research presents a comprehensive pangenome assembly of 27 pig genomes, marking a major milestone in pig genomic data.
  • The analysis highlights how structural variations influence adaptation and breed-specific traits, identifying a crucial gene linked to intramuscular fat and meat quality.
  • These findings emphasize the importance of multi-genome studies in discovering significant genomic traits for agricultural improvement.
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  • The study investigates surgical strategies for using TaBw01 porous tantalum rods in treating various stages of osteonecrosis of the femoral head (ONFH).
  • Patients were divided into two groups: one received a combination of impaction bone grafting and rod implantation, while the other had only the rod implanted.
  • Results showed that the combination strategy provided better survival rates and patient-reported outcomes in more advanced stages of ONFH, suggesting a tailored approach based on disease stage.
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  • Colorectal cancer is a growing health concern, and patients face a significant risk of developing lower limb deep vein thrombosis (DVT) after surgery.
  • The study aimed to create a machine learning model that predicts the likelihood of DVT in these patients to improve treatment and safety during recovery.
  • By analyzing data from 429 colorectal cancer patients and using advanced techniques, researchers found that the XGBoost model was the most effective, boasting an impressive AUC of 0.996, indicating its strong predictive capabilities.
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Per- and polyfluoroalkyl substances (PFAS), specifically perfluorooctanesulfonate (PFOS) and its alternative, 2-[(6-chloro-1,1,2,2,3,3,4,4,5,5,6,6-dodecafluorohexyl)oxy]-1,1,2,2-tetrafluoroethanesulfonic acid (6:2 Cl-PFESA), are associated with environmental health concerns and potential cancer progression. However, their impact on multidrug resistance (MDR) in pancreatic cancer (PC) chemotherapy remains unclear. Here, we employed drug-sensitivity assays, including IC calculations, and models with various chemotherapeutics, and paclitaxel (PTX) as a representative agent, combined with transcriptomic/proteomic sequencing and clinical prognostic analysis, to identify MDR-related genes and validate their relevance, with the objective of establishing the correlation between PFOS/6:2 Cl-PFESA exposure and MDR in PC at molecular, cellular, and animal model levels.

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Background: Neutrophils, crucial in the immune system, have recently been implicated in promoting malignancy. RNA methylation, an essential epigenetic feature, plays a key role in tumor microenvironment (TME) reprogramming. However, the relationship between neutrophils and RNA methylation in hepatocellular carcinoma (HCC) remains unclear.

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Nanowire (NW) field-effect transistors (FETs) have great potential in next-generation integrated circuits. InAs NWs are suitable for N-type transistors because of their excellent electrical properties. However, unlike the Si/SiO system, the loose and defective native oxide of InAs is unable to passivate the channel surface and serve as an efficient isolation layer (IL) in the gate stack.

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Background: Neuroimaging studies have shown that patients with mild traumatic brain injury (mTBI) often exhibit changes in gray matter volume (GMV) in the brain. However, the results regarding these changes are inconsistent, and the underlying molecular mechanisms remain unclear. This study aimed to investigate GMV changes in mTBI patients and uncover the molecular mechanisms driving these alterations.

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Pair-density wave (PDW) is a long-sought exotic state with oscillating superconducting order without external magnetic field. So far it has been rare in establishing a 2D microscopic model with PDW long-range order in its ground state. Here, we propose to study PDW superconductivity in a minimal model of spinless fermions (or spin-polarized electrons) on the honeycomb lattice with nearest-neighbor and next-nearest-neighbor interaction V_{1} and V_{2}, respectively.

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Background: Major depressive disorder (MDD) is associated with disrupted brain structural integration. Morphometric similarity offers a means to capture the coordinated patterns of various structural features. However, it remains unknown whether MDD-related changes can be detected in cortical morphometric similarity through the Morphometric Inverse Divergence (MIND) network.

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Background: With the rapid ageing of the global population, the number of older adults with physical frailty has been gradually increasing, making ageing at home a key strategy for coping with this demographic change. The opinions of older adults regarding their willingness to age at home deserve to be considered respectfully. As a result, this study aimed to investigate willingness to age at home and any associated underlying mechanisms involving physical frailty among older Chinese adults.

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Concurrent activation of CO and HO is essential for CO electroreduction reaction, but challenging. A sulfur-doped carbon nanotubes-supported nickel phthalocyanine (NiPc/S-CNTs) can concurrently activate CO and HO, promoting CO protonation to *COOH. The NiPc/S-CNTs achieves CO Faraday efficiency of >96% at current density from -20 to -140 mA cm.

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Article Synopsis
  • Terpenoids are key components of floral scent in the Chrysanthemum genus, showing notable differences between wild species and domesticated cultivars.
  • A study compared two wild ancestors and two cultivated varieties of C. morifolium, revealing that wild relatives produce more terpenoids than cultivars, with distinct gene expressions influencing this variation.
  • The research identified specific terpene synthase genes linked to floral scent compounds, demonstrating that the biochemical functions of these genes differ between wild and cultivated plants, shedding light on the effects of domestication on scent production.
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Recently, rs9651118 in the MTHFR gene and rs2790 in the TYMS gene have been repeatedly studied for their contribution to cancer risk. However, the results remain conflicting rather than conclusive. Therefore, we here conducted a replication case-control study and a meta-analysis to comprehensively examine the contribution of rs9651118 and rs2790 to cancer risk.

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