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CpG Island Definition and Methylation Mapping of the t2t-YAO Genome

Genomics, Proteomics & Bioinformatics 2024年第2期22卷 69-79页

作者： Ming Xiao Rui Wei Jun yu Chujie Gao Fengyi Yang Le Zhang College of Computer Science Sichuan UniversityChengdu 610065China key Laboratory of Systems Health Science of Zhejiang Province School of Life ScienceHangzhou Institute for Advanced StudyUniversity of Chinese Academy of SciencesHangzhou 310024China CAS key Laboratory of Genome Sciences and Information Beijing Institute of GenomicsChinese Academy of Sciences and China National Center for BioinformationBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China

Precisely defining and mapping all cytosine(C)positions and their clusters,known as CpG islands(CGIs),as well as their methylation status,are pivotal for genome-wide epigenetic studies,especially when population-centric reference genomes are ready for timely ***,we first align the two high-quality reference genomes,t2t-YAO and t2t-CHM13,from different ethnic backgrounds in a base-by-base fashion and compute their genome-wide density-defined and position-defined ***,by mapping some representative genome-wide methylation data from selected organs onto the two genomes,we find that there are about 4.7%–5.8%sequence divergency of variable categories depending on quality *** among the divergent sequences are mostly associated with neurological ***,CGIs associated with the divergent sequences are significantly different with respect to CpG density and observed CpG/expected CpG(O/E)ratio between the two ***,we find that the t2t-YAO genome not only has a greater CpG coverage than that of the t2t-CHM13 genome when whole-genome bisulfite sequencing(WGBS)data from the European and American populations are mapped to each reference,but also shows more hyper-methylated CpG sites as compared to the t2t-CHM13 *** study suggests that future genome-wide epigenetic studies of the Chinese populations rely on both acquisition of high-quality methylation data and subsequent precision CGI mapping based on the Chinese t2t reference.

关键词： t2t-YAO Position-defined CpG island Density-defined CpG island DNA methylation Genome analysis

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Continuous Fe^(3+)releasing enabled complete reconstruction of Ni-based MOF for promoted water oxidation in industrial alkali

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Science China Chemistry 2024年第9期67卷 2949-2957页

作者： Zhaojian Wang Wei Zhang Wenzhong Huang Ruohan yu Changliang Chen Liqiang Mai Liang Zhou State key Laboratory of Advanced technology for Materials Synthesis and Processing Wuhan University of TechnologyWuhan 430070China Sanya Science and Education Innovation Park Wuhan University of TechnologySanya 572000China Hubei Longzhong Laboratory Wuhan University of Technology(Xiangyang Demonstration Zone)Xiangyang 441000China

Most oxygen evolution reaction(OER)electrocatalysts show poor stability under industrial alkaline conditions(20–30 wt.%kOH).therefore,it is essential to develop stable,efficient,and low-cost OER catalysts for industrial water ***,we present a straightforward approach for the complete electrochemical reconstruction of Ni-BDC,a Ni-based metal-organic framework,for *** method involves the continuous release of Fe^(3+)from Fe foam counter electrode in a high-concentration(6.0 M,25 wt.%)kOH *** continuously Fe^(3+)releasing not only realizes in situ Fe^(3+)doping,but also introduces abundant defects in the obtained catalyst during cyclic voltammetry activation,thereby accelerating the electrochemical *** reconstructed OER catalyst(Fe-doped nickel hydroxide/oxyhydroxide nanosheets supported on Ni foam,Fe-NiO_(x)(OH)y/NF)manifests a low overpotential of 217 mV at 10 mA cm^(-2)and 263 m V at 100 m A cm^(-2)in 1.0 M ***,the Fe-NiO_(x)(OH)_(y)/NF also demonstrates high stability in 30 wt.%*** strategy of regulating the electrochemical reconstruction process sheds light on the construction of stable and efficient OER catalysts for industrial water electrolysis.

关键词： oxygen evolution reaction industrial alkaline conditions metal-organic framework complete reconstruction

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Highly Defective Dark tiO_(2) Modified with Pt: Effects of Precursor Nature and Preparation Method on Photocatalytic Properties

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transactions of tianjin University 2024年第2期30卷 198-209页

作者： E.D.Fakhrutdinova O.A.Reutova t.A.Bugrova I.yu.Ovsyuk L.S.kibis O.A.Stonkus D.B.Vasilchenko O.V.Vodyankina V.A.Svetlychnyi National Research tomsk State University TomskRussia 634050 Novosibirsk State University NovosibirskRussia 630090 Boreskov Institute of Catalysis NovosibirskRussia 630090 Nikolaev Institute of Inorganic Chemistry NovosibirskRussia 630090

the study focused on the modification with platinum of dark defective titania obtained via pulsed laser ablation. Both the method of Pt introduction and the nature of the Pt precursor were varied. All samples exhibited similar phase compositions, specific surface areas, and Pt contents. High-resolution transmission electron microscopy coupled with pulsed CO adsorption revealed increased dispersity when photoreduction and the hydroxonitrate complex (Me _(4) N) _(2) [Pt _(2) (OH) _(2) (NO _(3) ) _(8) ] were used. the sample featured a high content of single-atom species and subnano-sized Pt clusters. the X-ray photoelectron spectroscopy results showed that the photoreduction method facilitated the appearance of a larger number of Pt ^(2+) states, which appeared owing to the strong metal-support interaction (SMSI) eff ect of the transfer of electron density from the electron-saturated defects on the tiO _(2) surface to Pt ^(4+) . In the hydrogen evolution reaction, samples with a significant fraction of the Pt ^(2+) ionic component, capable of generating short-lived Pt^(0) single-atom sites under irradiation due to the SMSI eff ect, exhibited the highest photocatalytic activity. the 0.5Pt(C)/tiO_(2) -Ph sample exhibited the highest hydrogen yield with a quantum efficiency of 0.53, retaining its activity even after 8 h of operation.

关键词： Dark(black)tiO_(2) Pulsed laser ablation Platinum reduction method Precursor type Photocatalysis Hydrogen evolution reaction

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Rotating Massive Strangeon Stars and X-Ray Plateau of Short GRBs

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Research in Astronomy and Astrophysics 2024年第3期24卷 47-57页

作者： Xi-Yan Yang Xiao-yu Lai Wei-Wei tan Ren-Xin Xu School of Physics and Optoelectronic Engineering Yangtze UniversityJingzhou 434023China Research Center for Astronomy Hubei University of EducationWuhan 4300205China key Laboratory of Quark and Lepton Physics Central China Normal UniversityMinistry of EducationWuhan 430079China School of Physics Peking UniversityBeijing 100871China kavli Institute for Astronomy and Astrophysics Peking UniversityBeijing 100871China

Strangeon stars,which are proposed to describe the nature of pulsar-like compact stars,have passed various observational *** maximum mass of a non-rotating strangeon star could be high,which implies that the remnants of binary strangeon star mergers could even be long-lived massive strangeon *** study rigidly rotating strangeon stars in the slowly rotating approximation,using the Lennard-Jones model for the equation of *** can significantly increase the maximum mass of strangeon stars with unchanged baryon numbers,enlarging the mass-range of long-lived strangeon *** spin-down after merger,the decrease of radius of the remnant will lead to the release of gravitational *** into account the efficiency of converting the gravitational energy luminosity to the observed X-ray luminosity,we find that the gravitational energy could provide an alternative energy source for the plateau emission of X-ray *** fitting results of X-ray plateau emission of some short gamma-ray bursts suggest that the magnetic dipole field strength of the remnants can be much smaller than that of expected when the plateau emission is powered only by spin-down luminosity of magnetars.

关键词： dense matter-(stars) pulsars general-(stars) gamma-ray burst general

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Early embryonic failure caused by a novel mutation in the tUBB8 gene:A case report

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World Journal of Clinical Cases 2024年第12期12卷 2092-2098页

作者： Xiao-yu Zhang Xing-Xing Zhang Lei Wang Department of Reproductive Center Zaozhuang Maternal and Child Healthcare HospitalZaozhuang 277000Shandong ProvinceChina

BACkGROUND this study aimed to explore the relationship between gene mutations and early embryonic development arrest and to provide more possibilities for the diagnosis and treatment of repeated implantation *** SUMMARY Here,we collected and described the clinical data of a patient with early embryonic development stagnation after repeated in vitro fertilization attempts for primary infertility at the Department Reproductive Center of Zaozhuang Maternal and Child Healthcare *** also detected the whole-exon gene of the patient's spouse and parents,and conducted bioinformatics analysis to determine the pathogenesis of the *** A novel mutant of the tUBB8 gene[c.602G>t(p.C201F)]was identified,and this mutant provided new data on the genotype-phenotype relationships of related diseases.

关键词： Genes Mutation Embryonic development Fertilization in vitro Intracytoplasmic sperm injection Case report

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Infection and Genomic Characteristics of Campylobacter jejuni from a Patient Without Diarrhea—China,2018

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China CDC weekly 2024年第33期6卷 846-851,I0001-I0005页

作者： Xiangdong Yang Wen Wang Chajin Cui Binbin yu Qing Zhang Yanhua Wang Ecological Medicine Research Center National Key Laboratory of Intelligent Tracking and Forecasting for Infectious DiseasesNational Institute for Communicable Disease Control and PreventionChinese Center for Disease Control and PreventionBeijingChina Department of Zoonotic Disease Control and Prevention Yunnan Institute of Endemic Diseases Control&PreventionDali Bai Autonomous PrefectureYunnan ProvinceChina Medical Laboratory Department Yunnan Luxi County People’s HospitalHonghe Hani-Yi Autonomous PrefectureYunnan ProvinceChina

What is already known about this topic?A 20-month-old boy was admitted to the hospital with a maximum temperature of 40°C and a single ***,blood culture detected Francisella tularensis(***)using the VItEk 2 Compact *** is added by this report?After incubation of the patient’s blood for 48 hours,the cultured strain was identified as Campylobacter jejuni,named L8,excluding *** the genome sequence of L8,we found a novel type VI Secretion System(t6SS),of which the conserved C-terminal VgrG domain from positions 561 to 884 showed significant *** are the implications for public health practice?It should be underscored that relying solely on automatic bacterial identification instruments for accurate strain identification is ***,our study suggests that the potential effect of t6SS should be considered when studying the genetic features of a patient’s clinical phenotypes.

关键词： Campylobacter admitted culture

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Oligopeptide Self-Assembly:Mechanisms,Stimuli-Responsiveness,and Biomedical Applications

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CCS Chemistry 2024年第1期6卷 69-90页

作者： Lei Ge Hanyan Xu Xin Jiang Jing yu School of Materials Science and Engineering Nanyang Technological UniversitySingapore 637553 Institute for Digital Molecular Analytics and Science Nanyang Technological UniversitySingapore 637553

Oligopeptide self-assembly materials have emerged as a promising class of biomaterials with diverse applications in *** review highlights the recent progress in comprehending the selfassembly mechanisms intrinsic to oligopeptides and their behavior in response to specific *** methodically structuring the amino acid sequence and managing external stimuli such as pH levels,redox conditions,or enzymatic activity,we can exercise unprecedented control over the self-assembly *** controlling the self-assembly process of oligopeptides,various structures with extraordinary versatility can be obtained,including micelles,nanofibers,and coacervate droplets,each possessing modifiable mechanical and chemical ***,these self-assembled constructs demonstrate immense potential within varied biomedical *** stimuli-sensitive nature of oligopeptide assembly materials facilitates timely encapsulation and release of therapeutic cargos,consequently eliciting desired cellular *** approach paves the way for more precise tumor targeting,personalized medicinal treatments,and well-regulated drug *** innate biocompatibility and proficiency in replicating the extracellular matrix(ECM)render them ideally suited for applications such as tissue engineering,wound remediation,and regenerative *** summary,oligopeptide self-assembling materials show tremendous potential as adaptable platforms for cutting-edge biomedical applications,thereby bridging the divide between fundamental research and practical clinical application.

关键词： oligopeptides self-assembly nonequilibrium stimuli-responsive behavior biomedical applications

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AMicroseismic Signal Denoising Algorithm Combining VMD and Wavelet threshold Denoising Optimized by BWOA

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Computer Modeling in Engineering & Sciences 2024年第10期141卷 187-217页

作者： Dijun Rao Min Huang Xiuzhi Shi Zhi yu Zhengxiang He Zijin Mining Group Co. Ltd.Xiamen361016China Zijin(Changsha)Engineering technology Co. Ltd.Changsha410006China State key Laboratory of Comprehensive Utilization of Low-Grade Refractory Gold Ores Shanghang364204China School of Resources and Safety Engineering Central South UniversityChangsha410083China School of Resources&Environment Engineering Jiangxi University of Science and TechnologyGanzhou341000China Zijin School of Geology and Mining Fuzhou UniversityFuzhou350116China State key Laboratory for Fine Exploration and Intelligent Development of Coal Resources China University of Mining and TechnologyXuzhou221116China

the denoising of microseismic signals is a prerequisite for subsequent analysis and *** this research,a new microseismic signal denoising algorithm called the Black Widow Optimization Algorithm(BWOA)optimized VariationalMode Decomposition(VMD)jointWavelet threshold Denoising(WtD)algorithm(BVW)is *** BVW algorithm integrates VMD and WtD,both of which are optimized by ***,this algorithm utilizes VMD to decompose the microseismic signal to be denoised into several Band-Limited IntrinsicMode Functions(BLIMFs).Subsequently,these BLIMFs whose correlation coefficients with the microseismic signal to be denoised are higher than a threshold are selected as the effective mode functions,and the effective mode functions are denoised using WtD to filter out the residual low-and intermediate-frequency ***,the denoised microseismic signal is obtained through *** ideal values of VMD parameters and WtD parameters are acquired by searching with BWOA to achieve the best VMD decomposition performance and solve the problem of relying on experience and requiring a large workload in the application of the WtD *** outcomes of simulated experiments indicate that this algorithm is capable of achieving good denoising performance under noise of different intensities,and the denoising performance is significantly better than the commonly used VMD and Empirical Mode Decomposition(EMD)*** BVW algorithm is more efficient in filtering noise,the waveform after denoising is smoother,the amplitude of the waveform is the closest to the original signal,and the signal-to-noise ratio(SNR)and the root mean square error after denoising are more *** case based on Fankou Lead-Zinc Mine shows that for microseismic signals with different intensities of noise monitored on-site,compared with VMD and EMD,the BVW algorithm ismore efficient in filtering noise,and the SNR after denoising is higher.

关键词： Variational mode decomposition microseismic signal denoising wavelet threshold denoising black widow optimization algorithm

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Discovery of a potential bladder cancer inhibitor CHNQD-01281 by regulating EGFR and promoting infiltration of cytotoxic t cells

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Marine Life Science & technology 2024年第3期6卷 502-514页

作者： Jian-yu Liu Yao-Yao Jiang Peng-Jie Li Bo Yao Yi-Jing Song Ji-Xiu Gao Gulab Said Yang Gao Jun-yu Lai Chang-Lun Shao key Laboratory of Marine Drugs the Ministry of Education of ChinaSchool of Medicine and PharmacyOcean University of ChinaQingdao 266003China Department of Critical Care Medicine the Affiliated Hospital of Qingdao UniversityQingdao 266003China Department of Chemistry Women University SwabiSwabi 23430Pakistan Laoshan Laboratory Qingdao 266237China key Laboratory of tropical Medicinal Resource Chemistry of Ministry of Education College of Chemistry and Chemical EngineeringHainan Normal UniversityHaikou 571158China

As one of the common malignancies that threaten human life,bladder cancer occurs frequently with a high mortality rate in the world,due to its invasion,recurrence and drug *** products from marine microorganisms are becoming the hotspots in discovery of new candidate drug entities,especially in the area of *** A(BFA)is a natural Arf-GEFs inhibitor,but due to the low aqueous solubility,strong toxicity,and poor bioavailability,it is urgent to conduct structural optimization ***,a new BFA pyridine acrylate derivative CHNQD-01281 with improved solubility was prepared and found to exert moderate to strong antiproliferative activity on a variety of human cancer cell *** was noteworthy that CHNQD-01281 was most sensitive to two bladder cancer cell lines t24 and J82(IC50=0.079 and 0.081μmol/L)with high selectivity index(SI=14.68 and 14.32),suggesting a superior safety to *** vivo studies revealed that CHNQD-01281 remarkably suppressed tumor growth in a t24 nude mice xenograft model(tGI=52.63%)and prolonged the survival time(ILS=68.16%)in an MB49 allogeneic mouse model via inducing infiltration of cytotoxic t *** mechanism exploration indicated that CHNQD-01281 regulated both EGFR/PI3k/Akt and EGFR/ERk pathways and mediated the chemotactic effect of chemokines on immune effector ***,CHNQD-01281 may serve as a potential therapeutic agent for bladder cancer through multiple mechanisms.

关键词： Bladder cancer Marine natural products Brefeldin A EGFR/PI3k/Akt EGFR/ERk t-cell infiltration

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Bioinspired synthesis of cochlearol B and ganocin A

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Chinese Chemical Letters 2024年第7期35卷 242-246页

作者： Zhenhao Wang yuliang tang Ruyu Li Shuai tian yu tang Dehai Li key Laboratory of Marine Drugs Chinese Ministry of Education/Sanya Oceanographic Institute Ocean University of ChinaQingdao 266003/Sanya 572025China Laboratory for Marine Drugs and Bioproducts Pilot National Laboratory for Marine Science and TechnologyQingdao 266237China Marine Biomedical Research Institute of Qingdao Ocean University of ChinaQingdao 266071China

Described here is a divergent,biosynthetically inspired synthesis of cochlearol B and ganocin *** steps of the synthesis include the chromene unit construction through a biomimetic acid-catalyzed[4+2]ring cyclization.A photochemical[2+2]cycloaddition was featured to construct the cyclobutane core of cochlearol *** skeletal rearrangements of cochlearol B afforded ganocin A,that one of them was Lewis acid mediated epoxide rearrangement and another was DDQ induced cyclobutane formed tetrahydrofuran *** described syntheses not only achieved these natural products in an efficient manner,but also provided insight into the biosynthetic relationship between the two different skeletons.

关键词： Biomimetic rearrangement Avarane skeleton Cascade reactions Lewis acid total synthesis

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