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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 qzae009页

作者： Xiao, Ming wei, Rui Yu, jun Gao, Chujie Yang, Fengyi Zhang, Le Sichuan Univ Coll Comp Sci Chengdu 610065 Peoples R China Univ Chinese Acad Sci Hangzhou Inst Adv Study Sch Life Sci Key Lab Syst Hlth Sci Zhejiang Prov Hangzhou 310024 Peoples R China Chinese Acad Sci Beijing Inst Genom CAS Key Lab Genome Sci & Informat Beijing 100101 Peoples R China Univ Chinese Acad Sci Beijing 100049 Peoples R China

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 application. Here, 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 CGIs. Second, 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 cutoffs. Genes among the divergent sequences are mostly associated with neurological functions. Moreover, 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 genomes. Finally, 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 genome. Our 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 DNA METHYLATION SURVIVAL DATABASE GENES

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The Astrometric Performance of the China Space Station Telescope(CSST)Sky Survey in Extending the Gaia Celestial Reference Frame

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Research in Astronomy and Astrophysics 2024年第8期24卷 133-140页

作者： jun Yao Jia-Cheng Liu Niu Liu Zi Zhu Zhen-wei Wang School of Astronomy and Space Science Key Laboratory of Modern Astronomy and Astrophysics(Ministry of Education)Nanjing UniversityNanjing 210023China University of Chinese Academy of Sciences Nanjing 211135China

The multi-color imaging sky survey conducted by the China Space Station Telescope(CSST)holds significant promise for advancing the development of the celestial reference *** this study,we focus on assessing the astrometric performance of the CSST celestial reference frame(CSST-CRF)in extending the Gaia Celestial Reference Frame 3(Gaia-CRF3).First,the orientation precision of the CSST reference frame is evaluated using a simulated set of extragalactic sources with CSST g magnitudes ranging from 18 to 25 *** estimated orientation uncertainty caused by random error insignificantly affects the alignment between Gaia-CRF3 and the ***,the systematic effect of incomplete CSST sky coverage on the alignment between CSST-CRF and Gaia-CRF3 is discussed by analyzing the differences between the subset of Gaia-CRF3 in the CSST observation region(Gaia-CRF3′)and Gaia-CRF3 as a *** the third International Celestial Reference Frame(ICRF3)S/X band as an intermediate reference frame,the orientation offset between Gaia-CRF3′and GaiaCRF3 is estimated to be 20μ*** offset is marginally larger than the orientation offset between Gaia-CRF3 and the ICRF3,approximately 15μ*** residual spin and glide rate of Gaia-CRF3′are derived from the proper motions,consistent with that of Gaia-CRF3 within the formal ***,we explore the role of CSST in establishing a multi-band celestial reference frame by comparing its limiting magnitude and observation accuracy with existing catalogs in the infrared and ultraviolet *** to its broad wavelength coverage and highprecision measurements,CSST is well-positioned to make significant contributions to the development of a multiband celestial reference frame.

关键词： astrometry-reference systems-surveys

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The Consistency of LSE Estimators in Partial Linear Regression Models under Mixing Random Errors

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Acta Mathematica Sinica,English Series 2024年第5期40卷 1244-1272页

作者： Yun Bao YAO Yu Tan LÜ Chao LU wei WANG Xue jun WANG School of Mathematical Sciences Anhui UniversityHefei 230601P.R.China School of Big Data and Artificial Intelligence Chizhou UniversityChizhou 247000P.R.China School of Big Data and Statistics Anhui UniversityHefei 230601P.R.China

In this paper,we consider the partial linear regression model y_(i)=x_(i)β^(*)+g(ti)+ε_(i),i=1,2,...,n,where(x_(i),ti)are known fixed design points,g(·)is an unknown function,andβ^(*)is an unknown parameter to be estimated,random errorsε_(i)are(α,β)-mix_(i)ng random *** p-th(p>1)mean consistency,strong consistency and complete consistency for least squares estimators ofβ^(*)and g(·)are investigated under some mild *** addition,a numerical simulation is carried out to study the finite sample performance of the theoretical ***,a real data analysis is provided to further verify the effect of the model.

关键词： (α,β)-mixing random variables partial linear regression model least squares estimator consistency

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Synergistic CO_(2) mineralization using coal fly ash and red mud as a composite system

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International Journal of Coal Science & Technology 2024年第3期11卷 149-158页

作者： Zhenchao Yao Yugao Wang jun Shen Yanxia Niu Jiang Feng Yang Xianyong wei School of Chemical Engineering and Technology Taiyuan University of TechnologyTaiyuanShanxi030024China Key Laboratory of Coal Processing and Efficient Utilization Ministry of EducationUniversity of Mining&Technology221116XuzhouJiangsuChina

CO_(2) mineralization plays a critical role in the storage and utilization of CO_(2).Coal fly ash(CFA)and red mud(RM)are widely utilized as CO_(2) ***,the inert calcium species in CFA limit its carbonation capacity,meanwhile the substantial Ca^(2+)releasing of RM is hindered by a covering layer of calcium *** this study,CO_(2) mineralization in a composite system of CFA and RM was investigated to enhance the carbonation *** analyzers were employed to characterize the raw materials and resulting mineralization *** results demonstrated that a synergistic effect existed in the composite system of CFA and RM,resulting in improving CO_(2) mineralization rate and *** produced calcium carbonate was ectopically attached the surface of CFA in the composite system,thus slowing down its coverage on the surface of *** phenomenon facilitated further releasing Ca^(2+)from the internal RM,thereby enhancing CO_(2) mineralization ***,the inclusion of RM significantly improved the alkalinity of the composite system,which not only promoted the dissolution of Ca^(2+)of the inert CaSO_(4)(H_(2)O)_(2) in CFA,but also accelerated CO_(2) mineralization *** investigation would be beneficial to CO_(2) mineralization using industrial solid wastes.

关键词： CO_(2)mineralization Coal fly ash Red mud Synergistic effect

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Clinical efficacy of the topical application of tranexamic acid in tendon release in the hand:A randomized controlled trial

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Chinese Journal of Traumatology 2024年第3期27卷 163-167页

作者： Hao Liu jun Liu Yong-wei Wu Ming Zhou Yong-jun Rui Suzhou Medical College of Soochow University Suzhou215000Jiangsu provinceChina Department of Traumatic Orthopedics Wuxi Ninth People's Hospital Affiliated to Soochow UniversityWuxi214000Jiangsu provinceChina

Purpose:To study the clinical effectiveness of the topical application of tranexamic acid in hand tendon ***:This was a randomized controlled trial conducted after receiving approval from the local ethics committee according to guidelines from the Helsinki *** patients who underwent hand tendon release operation in our hospital from January 2021 to December 2022 were included and randomly divided into 2 *** in the tranexamic acid group(40 cases)received intraoperative topical application of 2 g of tranexamic acid after tendon release,while patients in the conventional group(40 cases)did not receive topical application of tranexamic acid during *** operation time,perioperative hemoglobin changes,total blood loss,incidence of early postoperative complications,and total active movement(TAM)before surgery and 6 months after surgery were compared between the 2 *** continuous variable which follows normal distribution expressed by mean±SD and used t-test to compare between ***,categorical variables were used by Chi-square test,and a p<0.05 indicated that the differences were statistically ***:Both groups were followed up for 7-18 months,with a mean of 10.3 *** decrease in hemoglobin was significantly less in the tranexamic acid group than in the conventional group(t=7.611,p<0.001).The total blood loss in the tranexamic acid group(74.33±20.50)mL was less than that in the conventional group(83.05±17.73)mL,and the difference was statistically significant(p<0.05).Both groups showed improvement in thumb/finger flexion and extension range of motion after surgery,and the TAM improved compared with those before surgery,and the difference was statistically significant(p<0.001).The TAM improved more significantly in the tranexamic acid group(87.68°±10.44°)than in the conventional group(80.47°±10.93°)at 6 months after surgery,with a statistically significant difference(t=3.013,p<0.0

关键词： Tranexamic acid Tendon release Total active movement Tendon adhesion

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The dynamics beamline at SSRF

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Nuclear Science and Techniques 2024年第9期35卷 56-67页

作者： Zhen Liu Li-Hua Wang Yong Jiang Ya-jun Tong Hua-Chun Zhu Te Ji Min Chen Zheng Jiang Xiang-jun wei Shanghai Advanced Research Institute Chinese Academy of SciencesShanghai 201204China ShanghaiTech University Shanghai 201210China

The dynamics beamline(D-Line),which combines synchrotron radiation infrared spectroscopy(SR-IR)and energy-disper-sive X-ray absorption spectroscopy(ED-XAS),is the first beamline in the world to realize concurrent ED-XAS and SR-IR measurements at the same sample position on a millisecond time-resolved *** combined technique is effective for investigating rapid structural changes in atoms,electrons,and molecules in complicated disorder systems,such as those used in physics,chemistry,materials science,and extreme ***,ED-XAS and SR-IR can be used independently in the two branches of the *** ED-XAS branch is the first ED-XAS beamline in China,which uses a tapered undulator light source and can achieve approximately 2.5×10^(12)photons/s·300 eV BW@7.2 keV at the sample *** exchange-able polychromator operating in the Bragg-reflection or Laue-transmission configuration is used in different energy ranges to satisfy the requirements for beam size and energy *** focused beam size is approximately 3.5μm(H)×21.5μm(V),and the X-ray energy range is 5–25 *** one-and two-dimensional position-sensitive detectors with frame rates of up to 400 kHz enables time resolutions of tens of microseconds to be *** distinctive techniques,such as the concurrent measurement of in situ ED-XAS and infrared spectroscopy,time-resolved ED-XAS,high-pressure ED-XAS,XMCD,and pump-probe ED-XAS,can be applied to achieve different scientific goals.

关键词： ED-XAS SR-IR Time-resolved D-line SSRF

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Unveiling the Re,Cr,and I diffusion in saturated compacted bentonite using machine-learning methods

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Nuclear Science and Techniques 2024年第6期35卷 65-77页

作者： Zheng-Ye Feng jun-Lei Tian Tao Wu Guo-jun wei Zhi-Long Li Xiao-Qiong Shi Yong-Jia Wang Qing-Feng Li Department of Engineering Huzhou UniversityHuzhou 313000China Institute of Theoretical Physics Shanxi UniversityTaiyuan 030006China College of Physics Science and Technology Shenyang Normal UniversityShenyang 110034China

The safety assessment of high-level radioactive waste repositories requires a high predictive accuracy for radionuclide diffusion and a comprehensive understanding of the diffusion *** this study,a through-diffusion method and six machine-learning methods were employed to investigate the diffusion of ReO_(4)^(−),HCrO_(4)^(−),and I−in saturated compacted bentonite under different salinities and compacted dry *** machine-learning models were trained using two *** dataset contained six input features and 293 instances obtained from the diffusion database system of the Japan Atomic Energy Agency(JAEA-DDB)and 15 *** other dataset,comprising 15,000 pseudo-instances,was produced using a multi-porosity model and contained eight input *** results indicate that the former dataset yielded a higher predictive accuracy than the *** gradient-boosting exhibited a higher prediction accuracy(R2=0.92)and lower error(MSE=0.01)than the other machine-learning *** addition,Shapley Additive Explanations,Feature Importance,and Partial Dependence Plot analysis results indicate that the rock capacity factor and compacted dry density had the two most significant effects on predicting the effective diffusion coefficient,thereby offering valuable insights.

关键词： Machine learning Effective diffusion coefficient Through-diffusion experiment Multi-porosity model Global analysis

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Lossless Compression Method for the Magnetic and Helioseismic Imager(MHI)Payload

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Research in Astronomy and Astrophysics 2024年第4期24卷 214-221页

作者： Li-Yue Tong Jia-ben Lin Yuan-Yong Deng Kai-Fan Ji jun-Feng Hou Quan Wang Xiao Yang National Astronomical Observatories Chinese Academy of SciencesBeijing 100101China Key Laboratory of Solar Activity and Space Weather National Space Science CenterChinese Academy of SciencesBeijing 100190China School of Astronomy and Space Science University of Chinese Academy of SciencesBeijing 100049China Yunnan Observatories Chinese Academy of SciencesKunming 650216China

The Solar Polar-orbit Observatory(SPO),proposed by Chinese scientists,is designed to observe the solar polar regions in an unprecedented way with a spacecraft traveling in a large solar inclination angle and a small ***,one of the most significant challenges lies in ultra-long-distance data transmission,particularly for the Magnetic and Helioseismic Imager(MHI),which is the most important payload and generates the largest volume of data in *** this paper,we propose a tailored lossless data compression method based on the measurement mode and characteristics of MHI *** background out of the solar disk is removed to decrease the pixel number of an image under *** predictive coding methods are combined to eliminate the redundancy utilizing the correlation(space,spectrum,and polarization)in data set,improving the compression *** results demonstrate that our method achieves an average compression ratio of *** compression time is also less than the general observation *** method exhibits strong feasibility and can be easily adapted to MHI.

关键词： methods:data analysis techniques:image processing Sun:magnetic fields Sun:photosphere

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Full waveform inversion based on hybrid gradient

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Petroleum Science 2024年第3期21卷 1660-1670页

作者： Chuang Xie Zhi-Liang Qin Jian-Hua Wang Peng Song Heng-Guang Shen Sheng-Qi Yu ben-jun Ma Xue-Qin Liu Qingdao Innovation and Development Base Harbin Engineering UniversityQingdao266000ShandongChina Qingdao Innovation and Development Center Harbin Engineering UniversityQingdao266000ShandongChina CNOOC Research Institute Co. Ltd.Beijing100028China College of Marine Geoscience Ocean University of ChinaQingdao266100ShandongChina weihai Sunfull Geophysical Exploration Equipment Co. Ltd.Weihai264209ShandongChina

The low-wavenumber components in the gradient of full waveform inversion(FWI)play a vital role in the stability of the ***,when FWI is implemented in some high frequencies and current models are not far away from the real velocity model,an excessive number of low-wavenumber components in the gradient will also reduce the convergence rate and inversion *** solve this problem,this paper firstly derives a formula of scattering angle weighted gradient in FWI,then proposes a hybrid *** hybrid gradient combines the conventional gradient of FWI with the scattering angle weighted gradient in each inversion frequency band based on an empirical formula derived *** weighted hybrid mode,we can retain some low-wavenumber components in the initial lowfrequency inversion to ensure the stability of the inversion,and use more high-wavenumber components in the high-frequency inversion to improve the convergence *** results of synthetic data experiment demonstrate that compared to the conventional FWI,the FWI based on the proposed hybrid gradient can effectively reduce the low-wavenumber components in the gradient under the premise of ensuring inversion *** also greatly enhances the convergence rate and inversion accuracy,especially in the deep part of the *** the field marine seismic data experiment also illustrates that the FWI based on hybrid gradient(HGFWI)has good stability and adaptability.

关键词： Full waveform inversion Hybrid gradient Scattering angle weighted Low-wavenumber component

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Strong metal–support interaction boosts the electrocatalytic hydrogen evolution capability of Ru nanoparticles supported on titanium nitride

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Carbon Energy 2024年第1期6卷 245-254页

作者： Xin Wang Xiaoli Yang Guangxian Pei Jifa Yang junzhe Liu Fengwang Zhao Fayi Jin wei Jiang Haoxi ben Lixue Zhang College of Chemistry and Chemical Engineering Collaborative Innovation Center for Hydrogen Energy Key Materials and Technologies of Shandong ProvinceQingdao UniversityQingdaoShandongChina State Key Laboratory of Bio-fibers and Eco-Textiles Qingdao UniversityQingdaoShandongChina Qingdao Institute of Bioenergy and Bioprocess Technology Chinese Academy of ScienceQingdaoShandongChina

Ruthenium(Ru)has been regarded as one of the most promising alternatives to substitute Pt for catalyzing alkaline hydrogen evolution reaction(HER),owing to its inherent high activity and being the cheapest platinum-group ***,based on the idea of strong metal–support interaction(SMSI)regulation,Ru/TiN catalysts with different degrees of TiN overlayer over Ru nanoparticles were fabricated,which were applied to the alkaline electrolytic *** reveal that the TiN overlayer would gradually encapsulate the Ru nanoparticles and induce more electron transfer from Ru nanoparticles to TiN support by the Ru–N–Ti bond as the SMSI degree *** study shows that the exposed Ru–TiN interfaces greatly promote the H_(2) desorption ***,the Ru/TiN-300 with a moderate SMSI degree exhibits excellent HER performance,with an overpotential of 38 mV at 10 mA cm^(−2).Also,due to the encapsulation role of TiN overlayer on Ru nanoparticles,it displays super long-term stability with a very slight potential change after 24 *** study provides a deep insight into the influence of the SMSI effect between Ru and TiN on HER and offers a novel approach for preparing efficient and stable HER electrocatalysts through SMSI engineering.

关键词： electronic structure hydrogen evolution reaction ruthenium strong metal-support interaction titanium nitride

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