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Remote sensing intelligent interpretation for geology: from the perspective of geological exploration

INTERNATIONAL GEOLOGY REVIEW 2025年第10期67卷 1389-1391页

作者： Afandi, Achmad Chen, Weitao Li, Xianju Qin, xuwen wang, Lizhe Univ Pendidikan Indonesia Dept Phys Educ Bandung Indonesia

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Correction of Read Biases Induced by Complex Reference Genome Regions for Improving Copy Number Variation Detection Using a Gaussian Mixture Model

Correction of Read Biases Induced by Complex Reference Genom...

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2024 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2024

作者： wang, xuwen Chang, Zhili wang, Shenjie Liu, Ruoyu Liu, Yuqian Zhu, Xiaoyan Shao, Yang Lai, Xin Yang, Shuanying wang, Jiayin Second Affiliated Hospital Xi'an Jiaotong University Department of Respiratory Medicine Xi'an710003 China Xi'an Jiaotong University School of Computer Science and Technology Xi'an710049 China Xi'an Jiaotong University Shaanxi Engineering Research Center of Medical and Health Big Data Xi'an710049 China Nanjing Geneseeq Technology INC. China

ISBN: (纸本)9798350386226

Copy number variations are crucial in cancer research, but their detection through next-generation sequencing is often hindered by read biases, particularly in complex genomic regions. Existing bias-correction methods address common issues like GC content but often fail in regions with repetitive sequences or segmental duplications, leading to false-positive CNVs. We propose refMask, a hybrid Gaussian model-based method that dynamically identifies low-confidence regions in the reference genome, correcting read biases and improving CNV detection accuracy. By integrating features from hg38 and T2T genomes, refMask tailors a custom blacklist for each sequencing sample, enhancing the reliability of CNV detection across diverse conditions. Our method provides a more accurate and flexible solution compared to current fixed blacklists, offering improved performance in challenging genomic regions. © 2024 IEEE.

关键词： Copy number variation Gaussian model Next-generation sequencing Read biase

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Energy Driving-Damage Degradation-Structural Failure Mechanism of Layered Sandstones Under Uniaxial Conditions

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ROCK MECHANICS AND ROCK ENGINEERING 2025年第3期58卷 3815-3853页

作者： Song, Zhixiang Zhang, Junwen Wu, Shaokang Zhao, Shankun Zhang, Yang Dong, Xukai Zhang, xuwen wang, Sihe China Univ Min & Technol Beijing Sch Energy & Min Engn Beijing 100083 Peoples R China China Coal Res Inst Mine Safety Technol Branch Beijing 100013 Peoples R China

It is of great theoretical significance to effectively reveal the energy driving-damage degradation-structural failure mechanism of rocks for the probability evaluation and prevention of rock burst in deep coal mines. Therefore, uniaxial loading and unloading tests of layered sandstones were conducted. Subsequently, the progressive failure process and stress-strain curves were obtained. Then, the evolution characteristics of strength, strain, energy, damage and macroscopic failure was characterized. Meanwhile, the damage proportion at each stage was quantified, and the linear damage deterioration law was obtained. Finally, the energy driving-damage degradation-structural failure mechanism was revealed. The results showed that: (1) increasing the unloading stress level did not necessarily reduce the bearing capacity, but the unloading effect could significantly affect the energy storage capacity;(2) there was the significant linear evolution relationship between the damage proportion and the unloading stress level under identical inclination angle in stages II and IV;(3) When the unloading stress level was over 0.7, the pre-peak structural adjustment behavior could strengthen the stability of post-peak structures and reduce the impact degree of rock burst. The conclusions could provide certain of theoretical basis for the prevention of rock burst in deep coal mines.

关键词： Structural evolution Unloading stress level Linear damage deterioration law Energy driving-damage degradation-structural failure mechanism Rock burst

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Genesis of the Hatu gold deposit: Constrained by in situ S-Pb isotope geochemistry of pyrite

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JOURNAL OF GEOCHEMICAL EXPLORATION 2023年第1期254卷

作者： An, Fang Zhu, Yongfeng wang, xuwen Li, Yuxuan Qiang, Jianli Northwest Univ Dept Geol State Key Lab Continental Dynam Xian 710069 Peoples R China Peking Univ Sch Earth & Space Sci Key Lab Orogen Belts & Crustal Evolut Beijing 100871 Peoples R China PetroChina Tarim Oilfield Co Explorat & Dev Res Inst Korla 84100 Peoples R China Northwest Univ Dept Geol Xian 710069 Peoples R China

As the largest gold deposit in west Junggar, the Hatu gold deposit is located between the Anqi and Hatu faults in the Hatu-Sartohay district. The orebodies, composed of gold-bearing quartz veins and auriferous altered wall-rocks, are controlled by NE-, NW-, and EW-trending faults in Early Carboniferous volcano-sedimentary rocks. In this study, integrated textural, in situ sulfur and lead isotope analyses of pyrite grains in the host rocks and ores reveal new information on the sources of the ore-forming fluids and metal, as well as the mechanism of gold deposition. Framboidal pyrite in tuffaceous siltstone has a large 834S range of-26.7 to +54.0 %o, which is attributed to sulfur-reducing bacterial (SRB) activity during sedimentary-diagenetic process. Fine-grained sub-hedral pyrite in meta-basalt shows negative 834S values from-26.7 to-12.1 %o, which may be generated by reduction of seawater sulfate by ferrous iron bearing minerals during metamorphism. The 834S values of four generations of hydrothermal pyrite (Py1-Py4) in the orebodies vary in a narrow range from +1.4 to-1.9 %o. The sulfur isotopic characteristics of the hydrothermal pyrite are similar to most magmatic hydrothermal deposits, but differ from the metamorphic pyrite in meta-basalt and the framboidal pyrite in tuffaceous siltstone. In addition, the uniform in situ lead isotope ratios of hydrothermal pyrite resemble the lead isotopic compositions of the granitic plutons in the west Junggar, but differ from those of pyrite in meta-basalt. The progressive decrease of 834S values from early-stage pyrite (+0.7 %o to +1.4 %o) to late-stage pyrite (-1.9 %o to +0.4 %o) corresponds to the major gold precipitation processes, which can be explained by gradual decrease of oxygen fugacity and increase of pH with decrease of temperature of a gold-bearing magmatic-hydrothermal system. A relatively stable environment for Au precipitation probably is a key factor controlling the scale of gold deposit, as the ore-forming

关键词： Pyrite In situ sulfur and lead isotope Ore genesis Hatu gold deposit

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Beyond transcription, aryl hydrocarbon receptor plays a protective role in periodontitis by interacting with CaMKII

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JOURNAL OF PERIODONTOLOGY 2025年第1期96卷 67-81页

作者： Zeng, xuwen Feng, Meiting Lu, Jiawei wang, Ruiling Deng, Li Yang, Yanan Luo, Lijun Tongji Univ Stomatol Hosp Shanghai Engn Res Ctr Tooth Restorat & Regenerat Dept Periodontol Shanghai Peoples R China Tongji Univ Shanghai Engn Res Ctr Tooth Restorat & Regenerat Dent Sch Shanghai Peoples R China Univ Porto Inst Res & Innovat Hlth i3S Inst Invest & Inovacao Saude Porto Portugal Univ Porto Inst Mol & Cell Biol IBMC Inst Biol Mol & Celular Porto Portugal

Background: The aryl hydrocarbon receptor (AhR) has been studied as an intracellular pattern recognition receptor that can identify bacterial pigments. To identify a potential therapeutic target for periodontitis, we investigated the expression of AhR in periodontitis and its role in the pathogenesis of periodontitis. Methods: First, we analyzed AhR expression in a single-cell dataset from human periodontal tissue. Quantitative polymerase chain reaction (qPCR), immunofluorescence, and immunohistochemistry were used to verify the AhR level. Later, we determined the phenotypes of ligature-induced periodontitis in myeloid-specific AhR-deficient mice (Lyz2-Cre(+/-) AhR(fx/fx)), after which RNA sequencing (RNA-seq), qPCR, Western blot, immunofluorescence, and immunohistochemistry were used to investigate the impacts of AhR on periodontitis and its mechanism. Finally, we determined the therapeutic effect of AhR agonist 6-Formylindolo[3,2-b]carbazole (FICZ) administration on murine periodontitis and verified the effects of FICZ on macrophage polarization in vitro. Results: AhR expression was enhanced in macrophages from periodontitis patients. Deletion of AhR from macrophages aggravated ligature-induced periodontitis and promoted the inflammatory response. Calcium/calmodulin-stimulated protein kinase II (CaMKII) phosphorylation was accelerated in AhR-deficient macrophages. Inhibiting CaMKII phosphorylation ameliorated periodontitis in Lyz2-Cre(+/-) AhR(fx/fx) mice. FICZ treatment blocked alveolar bone loss and relieved periodontal inflammation. FICZ diminished M1 macrophage polarization and promoted M2 macrophage polarization upon M1 macrophage induction. Conclusion: AhR played a protective role in the pathogenesis of periodontitis by orchestrating macrophage polarization via interacting with the CaMKII signaling pathway.

关键词： aryl hydrocarbon receptor CaMKII macrophage pattern recognition receptor periodontitis

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Discovery of 5-Nitro-N-(3-(trifluoromethyl)phenyl) Pyridin-2-amine as a Novel Pure Androgen Receptor Antagonist against Antiandrogen Resistance

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JOURNAL OF MEDICINAL CHEMISTRY 2024年第22期67卷 20514-20530页

作者： wang, Huating wang, xuwen Zhong, Haiyang Cai, Lvtao Fu, Weitao Chai, Xin Liao, Jianing Sheng, Rong Shan, Luhu Xu, Xiaohong Xu, Lei Pan, Peichen Hou, Tingjun Li, Dan Zhejiang Univ Coll Pharmaceut Sci State Key Lab Adv Drug Delivery & Release Syst Hangzhou 310058 Zhejiang Peoples R China Zhejiang Univ Jinhua Inst Jinhua 321000 Zhejiang Peoples R China Xuzhou Med Univ Jiangsu Key Lab New Drug Res & Clin Pharm Xuzhou 221004 Jiangsu Peoples R China Hefei Comprehens Natl Sci Ctr Inst Hlth & Med Hefei 230601 Anhui Peoples R China Univ Chinese Acad Sci Chinese Acad Sci Zhejiang Canc Hosp Inst Canc Res & Basic Med SciCanc Hosp Hangzhou 310022 Zhejiang Peoples R China Jiangsu Univ Technol Inst Bioinformat & Med Engn Sch Elect & Informat Engn Changzhou 213001 Jiangsu Peoples R China

The transformation of clinical androgen receptor (AR) antagonists into agonists driven by AR mutations poses a significant challenge in treating prostate cancer (PCa). Novel anti-AR therapeutics combating mutation-induced resistance are required. Herein, by combining structure-based virtual screening and biological evaluation, a high-affinity agonist E10 was first discovered. Then guided by the representative conformation of State 1 at the free energy landscape, the structural optimization of E10 was performed, and pure AR antagonists EL15 (IC50 = 0.94 mu M) and EF2 (IC50 = 0.30 mu M) were successfully identified. Both can antagonize wild-type and variant drug-resistant ARs. Therein, EF2 demonstrated potent inhibition of the AR pathway and effectively suppressed tumor growth in a C4-2B xenograft mouse model following oral administration. Further molecular dynamics simulation and mutagenesis studies revealed atomic insights into the mode of action of EF2 which may serve as a novel lead compound for developing therapeutics against AR-driven PCa.

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Cascading oxidoreductases-like nanozymes for high selective and sensitive fiuorescent detection of ascorbic acid

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Chinese Chemical Letters 2025年第4期36卷 627-632页

作者： Ying wang Hong Yang Caixia Zhu Qing Hong xuwen Cao Kaiyuan wang Yuan Xu Yanfei Shen Songqin Liu Yuanjian Zhang Jiangsu Engineering Laboratory of Smart Carbon-Rich Materials and Devices Jiangsu Province Hi-Tech Key Laboratory for Bio-Medical ResearchSchool of Chemistry and Chemical EngineeringMedical SchoolSoutheast UniversityNanjing 211189China

Compared with natural enzymes, nanozymes have the advantages of high stability and low cost;however,selectivity and sensitivity are key issues that prevent their further development. In this study, we report a cascade nanozymatic system with significantly improved selectivity and sensitivity that combines more substrate-specific reactions and sensitive fiuorescence detection. Taking detection of ascorbic acid(AA)as an example, a cascade catalytic reaction system consisting of oxidase-like N-doped carbon nanocages(NC) and peroxidase-like copper oxide(Cu O) improved the reaction selectivity in transforming the substrate into the target product by more than 1200 times against the interference of uric acid. The cascade catalytic reaction system was also applicable for transfer from open reactors into a spatially confined microfiuidic device, increasing the slope of the calibration curves by approximately 1000-fold with a linear detection range of 2.5 nmol/L to 100 nmol/L and a low limit of detection of 0.77 nmol/L. This work offers a new strategy that achieves significant improvements in selectivity and sensitivity.

关键词： Nanozyme Fluorescence Selectivity Sensitivity Ascorbic acid

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A low-temperature process for lithium extraction from lithium-bearing mineral: Conversion behavior and mechanisms

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SEPARATION AND PURIFICATION TECHNOLOGY 2025年 357卷

作者： Luo, Shaojun Zheng, Xiaohong Liu, Haichao Zhang, Qing He, Mingming wang, Yuehai He, xuwen Sun, Zhi China Univ Min & Technol Beijing Sch Chem & Environm Engn Beijing 100083 Peoples R China Chinese Acad Sci Inst Proc Engn Natl Engn Res Ctr Green Recycling Strateg Met Res Beijing 100190 Peoples R China China Univ Geosci Beijing Sch Mat Sci & Technol Beijing Key Lab Mat Utilizat Nonmet Minerals & Sol Natl Lab Mineral Mat Beijing 100083 Peoples R China Shanghai Polytech Univ 2360 Jinhai Rd Shanghai 201209 Peoples R China

Lithium extraction from lithium-bearing clay mineral (LiBC) has received significant attention due to the increasing demand of lithium for the advanced renewable energy industry. However, the low contents of valuable elements and stable physiochemical properties of LiBC result in high energy consumption and low efficiency in extracting lithium from LiBC. This study demonstrates a low-temperature strategy using (NH4)2SO4 as an additive to effectively extract lithium from LiBC. In details, the thermodynamic analysis verifies that Li, Al, and Fe can be converted to sulfates at 250-450 degrees C during thermal treatment, indicating the possibility for extraction of Li under low-temperature conditions. Subsequently, the leaching behavior of lithium under different roasting temperatures and water leaching conditions was investigated. The results show that 83.43 % of Li can be extracted under optimized conditions. The mechanism study was carried out through a number of characterization techniques including 3D microscope, TG-DSC, XRD, FTIR, and SEM. It reveals that formation of liquidus phase of molten salt is the key to achieve low-temperature roasting and transfer and reactions at the interface of molten salt and LiBC can be significantly enhanced that can easily breakdown the interlayer structures. Consequently, it offers distinct advantages, since the roasting temperature can be significantly decreased with minor impurity ions being leached into the solutions. This research therefore provides an efficient and environmentally friendly method for lithium extraction from minerals.

关键词： Lithium-bearing mineral Molten salt roasting Solid-liquid reaction Lithium Extraction Ammonium sulfate

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The Role of Glutathione S-Transferase in the Regulation of Plant Growth, and Responses to Environmental Stresses

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Phyton-International Journal of Experimental Botany 2025年第3期94卷 583-601页

作者： Chen Lin Zidan Zhang Zhao Zhang Yuxiang Long xuwen Shen Jinghao Zhang Youping wang Key Laboratory of Plant Functional Genomics of the Ministry of Education Yangzhou UniversityYangzhou225009China Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding Yangzhou UniversityYangzhou225009China

Glutathione S-transferases (GSTs) represent a large and diverse enzyme family ubiquitously distributed across the plant kingdom. These proteins catalyze the conjugation of glutathione (GSH) with electrophilic substrates in response to various stress conditions. Beyond their role in stress adaptation, certain GSTs are integral regulators of plant growth and development, contributing to a range of physiological processes. Most GST proteins exhibit dual enzymatic activities, functioning as both transferases and peroxidases, which enables their involvement in diverse cellular processes, including detoxification and stress responses. Recent advancements, particularly in X-ray crystallography, have enabled detailed structural analysis of GST proteins, significantly enhancing our understanding of their biological functions. This review offers a comprehensive overview of the classification and structural characteristics of GSTs in plants. It also highlights recent findings on their roles in plant growth and development, cell signaling, catalytic transport, and stress tolerance. Furthermore, key scientific challenges related to GSTs are discussed, focusing on their potential applications in agriculture. These insights aim to facilitate the screening of functional GST genes and support molecular breeding efforts across diverse crop species.

关键词： Glutathione S-transferase biotic and abiotic stress plant growth and development signal transduction biological functions

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Cocrystals of axially N-embedded quasi-carbon nanohoops via modulating the electron affinity of guest acceptors

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SCIENCE CHINA-CHEMISTRY 2025年 1-8页

作者： Zhang, Li Qiu, Shuhai Hu, Shunlong Xu, Hanren Sun, xuwen Jiang, Wei Qu, Da-Hui wang, Zhaohui East China Univ Sci & Technol Feringa Nobel Prize Scientist Joint Res Ctr Key Lab Adv Mat & Joint Int Res Lab Precis Chem & Sch Chem & Mol EngnInst Fine ChemFrontiers Sci C Shanghai 200237 Peoples R China Tsinghua Univ Dept Chem Key Lab Organ Optoelect & Mol Engn Beijing 100084 Peoples R China

Organic donor-acceptor cocrystals of pi-conjugated molecues have shown diverse applications in materials science. However, most cocrystals exist in neutral forms dominated by pi-pi interactions, while the ionic congeners and corresponding properties are rarely studied due to difficulties in harnessing the degree of charge transfer. Herein, we report cocrystals of axially N-embedded quasi-carbon nanohoops (DPP-D and DPP-T) with electron deficient guests. By modulating the electron affinity of the acceptor guests, the electronic structures of the complexes can be tuned from neutral to ionic states. Specifically, DPP-D interacts with TCNB molecules to form neutral superstructures via intermolecular pi-pi interactions, giving rise to a deep-red emission in the solid state. In contrast, an ionic complex showing near-infrared region absorptions and paramagnetic character on account of strong charge-transfer interactions is generated when DDQ molecules are involved. Their unique properties can be explained by different degrees of charge transfer and assembly modes, which have clearly been manifested by crystal structures and theoretical calculations. Our studies provide rare examples of pi-conjugated macrocycle-based donor-acceptor cocrystals in both neutral and ionic forms, and give insight to the design of multicomponent carbon nanomaterials.

关键词： n-doped carbon nanohoop donor-acceptor cocrystal charge transfer interaction ionic state

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