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IMAGGS: a radiogenomic framework for identifying multi-way associations in breast cancer subtypes

Journal of Genetics and Genomics 2024年第4期51卷 443-453页

作者： Shuyu Liang Sicheng Xu Shichong Zhou Cai Chang Zhiming Shao Yuanyuan Wang sheng chen Yunxia Huang Yi Guo Department of Electronic Engineering School of Information Science and TechnologyFudan UniversityShanghai 200433China The Key Laboratory of Medical Imaging Computing and Computer Assisted Intervention(MICCAI)of Shanghai Shanghai 200032China Shanghai Key Laboratory of Metabolic Remodeling and Health Institute of Metabolism and Integrative BiologyFudan UniversityShanghai 200433China Department of Ultrasound Fudan University Shanghai Cancer CenterDepartment of OncologyShanghai Medical CollegeFudan UniversityShanghai 200032China Department of Breast Surgery Fudan University Shanghai Cancer CenterDepartment of OncologyShanghai Medical CollegeFudan UniversityShanghai 200032China

Investigating correlations between radiomic and genomic profiling in breast cancer(BC)molecular subtypes is crucial for understanding disease mechanisms and providing personalized *** present a well-designed radiogenomic framework image–gene–gene set(IMAGGS),which detects multi-way associations in BC subtypes by integrating radiomic and genomic *** dataset consists of 721 patients,each of whom has 12 ultrasound(US)images captured from different angles and gene mutation *** better characterize tumor traits,12 multi-angle US images are fused using two distinct ***,we analyze complex many-to-many associations between phenotypic and genotypic features using a machine learning algorithm,deviating from the prevalent one-to-one relationship pattern observed in previous *** radiomic and genomic features are screened using these *** addition,gene set enrichment analysis is performed to investigate the joint effects of gene sets and delve deeper into the biological functions of BC *** further validate the feasibility of IMAGGS in a glioblastoma multiforme dataset to demonstrate the scalability of IMAGGS across different modalities and *** together,IMAGGS provides a comprehensive characterization for diseases by associating imaging,genes,and gene sets,paving the way for biological interpretation of radiomics and development of targeted therapy.

关键词： IMAGGS Radiogenomic framework "lmage-gene-geneset"associations Molecular subtypes Breast cancer

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Ultrafast Laser-Induced Excellent Thermoelectric Performance of PEDOT:PSS Films

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Energy & Environmental Materials 2024年第3期7卷 429-435页

作者： Xuewen Wang Yuzhe Feng Kaili Sun Nianyao Chai Bo Mai sheng Li Xiangyu chen Wenyu Zhao Qingjie Zhang State Key Laboratory of Advanced Technology for Materials Synthesis and Processing International School of Materials Science and EngineeringWuhan University of Technology Foshan Xianhu Laboratory of the Advanced Energy Science and Technology Guangdong Laboratory

Because poly（3,4-ethylenedioxythiophene）-poly（styrenesulfonate）(PEDOT:PSS)is water processable,thermally stable,and highly conductive,PEDOT:PSS and its composites have been considered to be one of the most promising flexible thermoelectric ***,the PEDOT:PSS film prepared from its commercial aqueous dispersion usually has very low conductivity,thus cannot be directly utilized for TE ***,a simple environmental friendly strategy via femtosecond laser irradiation without any chemical dopants and treatments was *** optimal conditions,the electrical conductivity of the treated film is increased to 803.1 S cm-1from 1.2 S cm-1around three order of magnitude higher,and the power factor is improved to19.0μW m-1K-2,which is enhanced more than 200 *** mechanism for such remarkable enhancement was attributed to the transition of the PEDOT chains from a coil to a linear or expanded coil conformation,reduction of the interplanar stacking distance,and the removal of insulating PSS with increasing the oxidation level of PEDOT,facilitating the charge *** work presents an effective route for fabricating high-performance flexible conductive polymer films and wearable thermoelectric devices.

关键词： electrical conductivity PEDOT:PSS thermoelectric film ultrafast laser irradiation

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Next‑Generation Sequencing‑Based Copy Number Variation Analysis in Chinese Patients with Primary Ciliary Dyskinesia Revealed Novel DNAH5 Copy Number Variations

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Phenomics 2024年第1期4卷 24-33页

作者： Weicheng chen Zhuoyao Guo Mengru Li Wei sheng Guoying Huang Cardiovascular Center Children’s Hospital of Fudan University399 Wanyuan RoadShanghai 201102China Respirology Department Children’s Hospital of Fudan UniversityShanghai 201102China

Primary ciliary dyskinesia(PCD)is a rare disorder characterized by extensive genetic ***,in the genetic pathogenesis of PCD,copy number variation(CNV)has not received sufcient attention and has rarely been reported,especially in ***-generation sequencing(NGS)followed by targeted CNV analysis was used in patients highly suspected to have PCD with negative results in routine whole-exome sequencing(WES)*** real-time polymerase chain reaction(qPCR)and Sanger sequencing were used to confrm these *** further characterize the ciliary phenotypes,high-speed video microscopy analysis(HSVA),transmission electron microscopy(TEM),and immunofuorescence(IF)analysis were *** 1(F1:II-1),a 0.6-year-old girl,came from a nonconsanguineous *** presented with situs inversus totalis,neonatal respiratory distress,and *** nasal nitric oxide level was markedly *** respiratory cilia beat with reduced *** revealed shortened outer dynein arms(ODA)of ***5:13717907-13722661del spanning exons 71–72 was identifed by NGS-based CNV *** 2(F2:IV-4),a 37-year-old man,and his eldest brother Patient 3(F2:IV-2)came from a consanguineous *** had sinusitis,bronchiectasis and situs inversus *** respiratory cilia of Patient 2 and Patient 3 were found to be uniformly immotile,with ODA *** novel homozygous deletions chr5:13720087_13733030delinsGTTTTC and chr5:13649539_13707643del,spanning exons 69–71 and exons 77–79 were identifed by NGS-based CNV *** in DNA copy number were confrmed by qPCR *** showed that the respiratory cilia of Patient 1 and Patient 2 were defcient in dynein axonemal heavy chain 5(DNAH5)protein *** report identifed three novel DNAH5 disease-associated variants by WES-based CNV *** study expands the genetic spectrum of PCD with DNAH5 in the Chinese population.

关键词： Primary ciliary dyskinesia DNAH5 gene Copy number variation Phenotypic heterogeneity

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High-Quality and Wafer-Scale Cubic Silicon Carbide Single Crystals

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Energy & Environmental Materials 2024年第4期7卷 442-449页

作者： Guobin Wang Da sheng Yunfan Yang Hui Li Congcong Chai Zhenkai Xie Wenjun Wang Jiangang Guo Xiaolong chen Beijing National Laboratory for Condensed Matter Physics Institute of Physics Chinese Academy of Sciences University of Chinese Academy of Sciences

Cubic silicon carbide (3C-SiC) has superior mobility and thermal conduction over that of widely applied hexagonal ***,much lower concentration of interfacial traps between insulating oxide gate and3C-SiC helps fabrica... 详细信息

关键词： cubic SiC high-temperature solution growth high-temperature surface tension solid–liquid interfacial energy wide band gap semiconductor

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Mitochondrial dysfunction affects hepatic immune and metabolic remodeling in patients with hepatitis B virus-related acute-onchronic liver failure

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World Journal of Gastroenterology 2024年第8期30卷 881-900页

作者： Yu Zhang Xiao-Ling Tian Jie-Qun Li Dong-sheng Wu Qiang Li Bin chen Department of Hepatology Institute of HepatologyThe First Affiliated Hospital of Hunan University of Chinese MedicineChangsha 410021Hunan ProvinceChina Department of Liver Transplant Transplant Medical Research CenterThe Second Xiangya Hospital of Central South UniversityChangsha 410011Hunan ProvinceChina Department of Surgery The First Affiliated Hospital of Hunan University of Chinese MedicineChangsha 410021Hunan ProvinceChina

BACKGROUND Immune dysregulation and metabolic derangement have been recognized as key factors that contribute to the progression of hepatitis B virus(HBV)-related acute-on-chronic liver failure(ACLF).However,the mechanisms underlying immune and metabolic derangement in patients with advanced HBV-ACLF are *** To identify the bioenergetic alterations in the liver of patients with HBV-ACLF causing hepatic immune dysregulation and metabolic *** Liver samples were collected from 16 healthy donors(HDs)and 17 advanced HBV-ACLF patients who were eligible for liver *** mitochondrial ultrastructure,metabolic characteristics,and immune microenvironment of the liver were *** focus was given to organic acid metabolism as well as the function and subpopulations of macrophages in patients with *** Compared with HDs,there was extensive hepatocyte necrosis,immune cell infiltration,and ductular reaction in patients with *** patients,the liver suffered severe hypoxia,as evidenced by increased expression of hypoxia-inducible factor-1α.Swollen mitochondria and cristae were observed in the liver of *** number,length,width,and area of mitochondria were adaptively increased in *** metabolomics analysis revealed that mitochondrial oxidative phosphorylation decreased,while anaerobic glycolysis was enhanced in patients with *** findings suggested that,to a greater extent,hepa-tocytes used the extra-mitochondrial glycolytic pathway as an energy *** with HBV-ACLF had elevated levels of chemokine C-C motif ligand 2 in the liver homogenate,which stimulates peripheral monocyte infiltration into the *** and functional analysis of macrophage subsets revealed that patients with ACLF had a high abundance of CD68^(+)HLA-DR^(+)macrophages and elevated levels of both interleukin-1βand transforming growth factor-β1 in their *** abundance of CD206^(+)CD163^(+)macrophag

关键词： Acute-on-chronic liver failure Hypoxia-inducible factor-1α Mitochondria Metabolic phenotype Immune cells

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Multilevel Micro Structures of the Clam Make the Sealing Even Tighter

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Journal of Bionic Engineering 2024年第3期21卷 1442-1452页

作者： Daobing chen Xiaolong Zhang Junqiu Zhang Zhiwu Han Ruteng Wang Zhen Lin Yifeng Lei Longjian Xue sheng Liu The Institute of Technological Science Wuhan UniversityWuhan430072China School of Power and Mechanical Engineering Wuhan UniversityWuhan430072China The Key Laboratory of Bionic Engineering(Ministry of Education) Jilin UniversityChangchun130022China Institute of Structured and Architected Materials Liaoning Academy of MaterialsShenyang110167China

Excellent fluid sealing performance is crucial to ensuring the safety of important equipment,especially in aerospace field,such as space capsule and fuel *** frequently opening and closing of the sealing devices is particularly *** by this background,clams(Mactra chinensis)which can open and close their double shells with superior sealing performance,are studied in this ***,we show that the clam’s sealing ability is the result of its unique multilevel intermeshing microstructures,including hinge teeth and *** microstructures,which resemble gear teeth,engage with each other when the shell closes,forming a tight structure that prevents the infiltration of water from the ***,the presence of micron blocks prevents the penetration of finer *** simulation results of the bionic end seal components show that the multilevel microstructure has a superior sealing *** research is expected to be applied to undersea vehicles that require frequent door opening and closing.

关键词： Multilevel micro structures Opening and closing components Clam Sealing Bionic

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Surface engineering of Li-and Mn-rich layered oxides for superior Li-ion battery

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Tungsten 2024年第1期6卷 259-268页

作者： Lu-Xiang Ma Tian-Dong chen Chun-Xi Hai sheng-De Dong Xin He Qi Xu Hang Feng AXin Ji-Tao chen Yuan Zhou College of Materials and Chemistry and Chemical Engineering Chengdu University of TechnologyChendu 610000China Qinghai Building and Materials Research Co. LtdXining 810000China Beijing National Laboratory for Molecular Sciences College of Chemistry and Molecular EngineeringPeking UniversityBeijing 100871China

The Li-and Mn-rich layered oxides(R-LNCM)are considered as promising cathode materials for high-energy density lithium-ion batteries(LIBs).However,the interface side reaction aggravates the voltage and capacity fading between cathode material and electrolyte at high voltage,which severely hinders the practical application of LIB ***,lithium polyacrylate(LiPAA)as the binder and coating agent is applied to suppress the voltage and capacity fading of R-LNCM *** flexible LiPAA layers with high elasticity are capable of impeding cathode cracks on the particle surface via mechanical stress ***,superior voltage and capacity fading suppression on R-LNCM electrode is finally *** a result,LiPAA-R-LNCM cathode exhibits a remarkable specific capacity of 186 mA·h·g^(-1)with~73%retention at 1℃after ***,the corresponding average discharge potential is maintained to~3.1 V with only~0.4 V falling.

关键词： LiPAA interphase layer Interface side reaction Cathode cracks Capacity and voltage fading suppression Liand Mn-rich cathode

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Decoding the fish genome opens a new era in important trait research and molecular breeding in China

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Science China Life Sciences 2024年第10期67卷 2064-2083页

作者： Qian Zhou Jialin Wang Jiongtang Li Zhangfan chen Na Wang Ming Li Lei Wang Yufeng Si sheng Lu Zhongkai Cui Xuhui Liu Songlin chen State Key Laboratory of Mariculture Biobreeding and Sustainable Goods Yellow Sea Fisheries Research InstituteChinese Academy of Fishery Sciences Laboratory for Marine Fisheries Science and Food Production Processes Qingdao Marine Science and Technology Center Key Laboratory of Aquatic Genomics Ministry of Agriculture and Rural AffairsBeijing Key Laboratory of Fishery BiotechnologyChinese Academy of Fishery Sciences

Aquaculture represents the fastest-growing global food production sector, as it has become an essential component of the global food *** has the world's largest aquaculture industry in terms of production volume. However, the sustainable development of fish culture is hindered by several concerns, including germplasm degradation and disease outbreaks. The practice of genomic breeding, which relies heavily on genome information and genotypephenotype relationships, has significant potential for increasing the efficiency of aquaculture production. In 2014, the completion of the genome sequencing and annotation of the Chinese tongue sole signified the beginning of the fish genomics era in China. Since then, domestic researchers have made dramatic progress in functional genomic studies. To date, the genomes of more than 60 species of fish in China have been assembled and annotated. Based on these reference genomes, evolutionary, comparative,and functional genomic studies have revolutionized our understanding of a wide range of biologically and economically important traits of fishes, including growth and development, sex determination, disease resistance, metamorphosis, and pigmentation. Furthermore, genomic tools and breeding techniques such as SNP arrays, genomic selection, and genome editing have greatly accelerated genetic improvement through the incorporation of functional genomic information into breeding activities. This review aims to summarize the current status,advances, and perspectives of the genome resources, genomic study of important traits, and genomic breeding techniques of fish in *** review will provide aquaculture researchers, fish breeders, and farmers with updated information concerning fish genomic research and breeding technology. The summary will help to promote the genetic improvement of production traits and thus will support the sustainable development of fish aquaculture.

关键词： fish genomics economic traits genomic selection genome editing genomic breeding

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Compact ultrafast neutron sources via bulk acceleration of deuteron ions in an optical trap

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Matter and Radiation at Extremes 2024年第5期9卷 22-31页

作者： Zhiyu Lei Hanghang Ma Xiaobo Zhang Lin Yu Yihang Zhang Yutong Li Suming Weng Min chen Jie Zhang Zhengming sheng Key Laboratory for Laser Plasmas and School of Physics and Astronomy Shanghai Jiao Tong UniversityShanghai 200240China Collaborative Innovation Centre of IFSA Shanghai Jiao Tong UniversityShanghai 200240China Tsung-Dao Lee Institute Shanghai Jiao Tong UniversityShanghai 201210China College of Physics and Electronics Engineering Northwest Normal UniversityLanzhou 730070China Beijing National Laboratory for Condensed Matter Physics Institute of PhysicsChinese Academy of SciencesBeijing 100190China

A scheme for a quasi-monoenergetic high-flux neutron source with femtosecond duration and highly anisotropic angular distribution is *** scheme is based on bulk acceleration of deuteron ions in an optical trap or density grating formed by two counter-propagating laser pulses at an intensity of-10^(16)W~cm^(2)in a near-critical-density *** deuterons are first pre-accelerated to an energy of tens of keV in the ambipolar fields formed in the optical *** energy is boosted to the MeV level by another one or two laser pulses at an intensity of-10^(20)W~cm^(2),enabling fusion reactions to be triggered with high *** contrast to previously proposed pitcher–catcher configurations,our scheme can provide spatially periodic acceleration structures and effective collisions between deuterons inside the whole target ***,neutrons are generated directly inside the optical *** simulations show that neutron pulses with energy 2–8 MeV,yield 10^(18)–10^(19)n/s,and total number 106–107 in a duration-400 fs can be obtained with a 25μm ***,the neutron pulses exhibit unique angularly dependent energy spectra and flux distributions,predominantly along the axis of the energy-boosting *** microsize femtosecond neutron pulses may find many applications,such as high-resolution fast neutron imaging and nuclear physics research.

关键词： acceleration scheme angular

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Boosting oxygen reduction in acidic media through integration of Pt-Co alloy effect and strong interaction with carbon defects

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Nano Research 2024年第9期17卷 7900-7908页

作者： Nannan Ji Haoyun sheng Shilong Liu Yangyuan Zhang Hongfei Sun Lingzhi Wei Ziqi Tian Peng Jiang Qianwang chen Jianwei Su Institutes of Physical Science and Information Technology Key Laboratory of Structure and Functional Regulation of Hybrid MaterialsAnhui UniversityHefei 230601China Ningbo Institute of Materials Technology and Engineering Chinese Academy of SciencesNingbo 315201China Hefei National Laboratory for Physical Science at Microscale Department of Materials Science&EngineeringUniversity of Science and Technology of ChinaHefei 230026China International Collaborative Laboratory of 2D Materials for Optoelectronics Science and Technology of Ministry of Education Institute of Microscale OptoelectronicsShenzhen UniversityShenzhen 518060China

Optimization of Pt atom utilization efficiency is critical for the development of proton-exchange-membrane fuel *** we aim to develop an efficient oxygen reduction reaction(ORR)catalyst with a low Pt content through the concurrent modification of Pt-Co alloy catalysts and carbon *** the present study,ultrafine Pt-Co alloy nanoparticles are successfully synthesized and stabilized by topological carbon defects via adopting the ammonia thermal *** the low Pt loading,the obtained catalyst exhibits an impressive half-wave potential of 0.926 V versus the reversible hydrogen electrode in 0.1 M HClO_(4)***,the durability testing using the timed-current method demonstrates a tiny loss of only 3.6%after 12 *** experimental results and theoretical calculations demonstrate that topological carbon defects significantly enhance the charge transfer processes at the alloy/carbon interface,contributing to the strong electronic metal-support interactions between the Pt-Co alloy nanoparticles and topological carbon *** interactions,along with the alloy effect,play a crucial role in promoting the ORR performance in acidic media.

关键词： electrocatalysis oxygen reduction reaction Pt-Co alloy electronic interaction topological carbon defects

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