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Advances in regional nodal management of early-stage breast cancer

Chinese Journal of Cancer Research 2024年第2期36卷 215-225页

作者： Zhao bi Yongsheng Wang Breast Cancer Center Shandong Cancer Hospital and InstituteShandong First Medical University and Shandong Academy of Medical SciencesJinan 250017China

With the continuous improvement of systemic treatment, reasonable local regional control of early-stage breast cancer can be translated into survival benefits. The optimization of regional nodal management in patients with limited sentinel lymph node(SLN) metastasis needs to be weighed by surgical complications, regional recurrence risk, and lymph node status, as well as other escalating treatment(systemic/radiotherapy) that may result from deescalating surgery. With the effective support and supplementation of systemic therapy and radiotherapy, the management of axillary surgery is developing in a de-escalating trend. The widespread application of neoadjuvant therapy has contributed to optimizing the management of patients with clinically node-negative/imaging nodepositive disease. In clinical practice, it is necessary to consider the residual tumor burden of regional lymph nodes when formulating the optimal irradiation fields in patients with limited positive SLN without axillary lymph node dissection. The combined application of genomic tests and American College of Surgeons Oncology Group Z0011/AMAROS criteria could provide patients with a better strategy of dual de-escalation treatment, which includes the de-escalation of both axillary surgery and systemic treatment. In the era of sentinel lymph node biopsy(SLNB), the regional nodal management of breast cancer should adhere to the concept of “updating ideas, making bold assumptions, and carefully seeking proof”, make full use of the benefits of systemic therapy and radiotherapy to reduce the scope of surgery and complications, and expand the “net benefit” of efficacy and quality of life. This review discusses the optimization of regional nodal management in the era of SLNB, in order to provide reference information for clinicians.

关键词： Breast cancer sentinel lymph node biopsy internal mammary lymph node radiotherapy surgery

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ORPA:a fast and efficient phylogenetic analysis method for constructing genome-wide alignments of organelle genomes

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Journal of Genetics and Genomics 2024年第3期51卷 352-358页

作者： Guiqi bi Xinxin Luan Jianbin Yan Shenzhen Branch Guangdong Laboratory of Lingnan Modern AgricultureKey Laboratory of Synthetic BiologyMinistry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhenGuangdong 518124China Zhengzhou Research Base State Key Laboratory of Cotton BiologySchool of Agricultural SciencesZhengzhou UniversityZhengzhouHenan 450001China

Creating a multi-gene alignment matrix for phylogenetic analysis using organelle genomes involves aligning single-gene datasets manually,a process that can be time-consuming and prone to errors.The HomBlocks pipeline has been created to eliminate the inaccuracies arising from manual operations.The processing of a large number of sequences,however,remains a time-consuming task.To conquer this challenge,we develop a speedy and efficient method called Organelle Genomes for Phylogenetic Analysis(ORPA).ORPA can quickly generate multiple sequence alignments for whole-genome comparisons by parsing the result files of NCbi BLAST,completing the task just in 1 min.With increasing data volume,the efficiency of ORPA is even more pronounced,over 300 times faster than HomBlocks in aligning 60 high-plant chloroplast genomes.The phylogenetic tree outputs from ORPA are equivalent to HomBlocks,indicating its outstanding efficiency.Due to its speed and accuracy,ORPA can identify species-level evolutionary conflicts,providing valuable insights into evolutionary cognition.

关键词： Ultrafast alignment Organelle phylogenomics Phylogenomic conflict Efficient pipeline Multiple sequence alignment pipeline

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On the Proper Holomorphic Mappings between Equidimensional Hartogs Domains over Hermitian Symmetric Manifolds

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Acta Mathematica Sinica,English Series 2024年第5期40卷 1215-1228页

作者： En Chao bi School of Mathematics and Statistics Qingdao UniversityQingdao 266071P.R.China

In this paper,we study a family of Hartogs domains fibred over Hermitian symmetric manifolds being a unit ball in C^(m).The aim of the present study is to establish the rigidity results about proper holomorphic mappings between two equidimensional Hartogs domains over Hermitian symmetric manifolds.In particular,we can fully determine its biholomorphic equivalence and automorphism group.

关键词： Proper holomorphic mapping Hartogs domains Hermitian symmetric manifolds

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Genomic allele-specific base editing with imperfect gRNA

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Journal of Genetics and Genomics 2023年第10期50卷 799-802页

作者： Xuxu Chen Dongdong Zhao Xueting Hou Ju Li Shiming Pu Jidong Fei Siwei Li Zuping Zhou changhao bi Xueli Zhang School of Life Sciences Guangxi Normal UniversityGuilinGuangxi 541006China Tianjin Institute of Industrial biotechnology Chinese Academy of SciencesTianjin 300308China National Technology Innovation Center of Synthetic biology Tianjin 300308China Key Laboratory of Systems Microbial biotechnology Chinese Academy of SciencesTianjin 300308China Hubei College of Chinese Medicine JingZhouHubei 434020China College of Life Science Tianjin Normal UniversityTianjin 300387China Guangxi Universities Key Laboratory of Stem Cell and biopharmaceutical Technology Guangxi Normal UniversityGuilinGuangxi 541006China

CRISPR base editor(BE)techniques are a promising tool for precise cytosine(C)to thymine(T),adenine(A)to guanine(G),and C to G base editing(CBE,ABE,and GBE,respectively)without the use of a donor DNA template conversio... 详细信息

关键词： base A Genomic

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New xylose transporters support the simultaneous consumption of glucose and xylose in Escherichia coli

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mLife 2022年第2期1卷 156-170页

作者： Xinna Zhu Feiyu Fan Huanna Qiu Mengyao Shao Di Li Yong Yu changhao bi Xueli Zhang Tianjin Institute of Industrial biotechnology Chinese Academy of SciencesTianjinChina Key Laboratory of Systems Microbial biotechnology Chinese Academy of SciencesTianjinChina College of biotechnology Tianjin University of Sciences and TechnologyTianjinChina University of Chinese Academy of Sciences BeijingChina

Glucose and xylose are two major components of lignocellulose.Simultaneous consumption of glucose and xylose is critical for engineered microorganisms to produce fuels and chemicals from lignocellulosic biomass.Although many production limitations have been resolved,glucose‐induced inhibition of xylose transport remains a challenge.In this study,a cell growthbased screening strategy was designed to identify xylose transporters uninhibited by glucose.The glucose pathway was genetically blocked in Escherichia coli so that glucose functions only as an inhibitor and cells need xylose as the carbon source for survival.Through adaptive evolution,omics analysis and reverse metabolic engineering,a new phosphoenolpyruvate:carbohydrate phosphotransferase system(PTS)galactitol transporter(GalABC,encoded by EcolC_1640,EcolC_1641,and EcolC_1642 genes)that is not inhibited by glucose was identified.Inactivation of adenylate cyclase led to increased expression of the EcolC_1642 gene,and a point mutation in gene EcolC_1642(N13S)further enhanced xylose transport.During the second round of gene mining,AraE and a new ABC transporter(AraFGH)of xylose were identified.A point mutation in the transcription regulator araC(L156I)caused increased expression of araE and araFGH genes without arabinose induction,and a point mutation in araE(D223Y)further enhanced xylose transport.These newly identified xylose transporters can support the simultaneous consumption of glucose and xylose and have potential use in producing chemicals from lignocellulose.

关键词： ABC transporter glucose PTS xylose xylose transporter

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Tripartite motif-containing protein 11(TRIM11):a novel weapon against Alzheimer’s disease

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Signal Transduction and Targeted Therapy 2024年第2期9卷 339-340页

作者： Yichu Fu bi Zhang Jianfeng Liu College of Life Science and Technology Key Laboratory of Molecular Biophysics of MOEHuazhong University of Science and TechnologyWuhanHubei 430074China

In a recent study published in Science,Zhang et al.discovered that tripartite motif-containing(TRIM)protein 11(TRIM11)exhibited strong inhibition on tau aggregation,which is a pathological characteristic of tauopathies including Alzheimer’s disease(AD).1 This makes TRIM11 a promising novel target for the treatment of AD and other tauopathies.

关键词： Alzheimer tau TRIM

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Role of ferroptosis in fibrosis: From mechanism to potential therapy

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中华医学杂志(英文版) 2024年第7期137卷 806-817页

作者： Qiu Xuemeng bi Qing Wu Jiyue Sun Zejia Wang Wei Department of Urology Beijing Chao-Yang Hospital Capital Medical University Beijing 100020 China Urinary and Nephropathy Center Institute of Urology

Fibrosis, which is a manifestation of the physiological response to injury characterized by excessive accumulation of extracellular matrix components, is a ubiquitous outcome of the repair process. However, in cases of repetitive or severe injury, fibrosis may become dysregulated, leading to a pathological state and organ failure. In recent years, a novel form of regulated cell death, referred to as ferroptosis, has been identified as a possible contributor to fibrosis; it is characterized by iron-mediated lipid peroxidation. It has garnered attention due to the growing body of evidence linking ferroptosis and fibrogenesis, which is believed to be driven by underlying inflammation and immune responses. Despite the increasing interest in the relationship between ferroptosis and fibrosis, a comprehensive understanding of the precise role that ferroptosis plays in the formation of fibrotic tissue remains limited. This review seeks to synthesize previous research related to the topic. We categorized the different direct and indirect mechanisms by which ferroptosis may contribute to fibrosis into three categories: (1) iron overload toxicity; (2) ferroptosis-evoked necroinflammation, with a focus on ferroptosis and macrophage interplay; and (3) ferroptosis-associated pro-fibrotic factors and pathways. Furthermore, the review considers the potential implications of these findings and highlights the utilization of ferroptosis-targeted therapies as a promising strategy for mitigating the progression of fibrosis. In conclusion, novel anti-fibrotic treatments targeting ferroptosis could be an effective treatment for fibrosis.

关键词： Ferroptosis Fibrosis Anti-fibrotic Iron metabolism Necroinflammation Epithelial-mesenchymal transition

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A Reliable Iteration Algorithm for One-bit Compressive Sensing on the Unit Sphere

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Acta Mathematicae Applicatae Sinica 2024年第3期40卷 801-822页

作者： Yan-cheng LU Ning bi An-hua WAN School of Mathematics Sun Yat-sen UniversityGuangzhou 510275China

The one-bit compressed sensing problem is of fundamental importance in many areas,such as wireless communication,statistics,and so on.However,the optimization of one-bit problem coustrained on the unit sphere lacks an algorithm with rigorous mathematical proof of convergence and validity.In this paper,an iteration algorithm is established based on difference-of-convex algorithm for the one-bit compressed sensing problem constrained on the unit sphere,with iterating formula■,where C is the convex cone generated by the one-bit measurements andη_(1)>η_(2)>1/2.The new algorithm is proved to converge as long as the initial point is on the unit sphere and accords with the measurements,and the convergence to the global minimum point of the l_(1)norm is discussed.

关键词： one-bit compressed sensing difference of convex algorithm iteration algorithm ■1-minimization

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Security estimation of LWE via BKW algorithms

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Cybersecurity 2024年第1期7卷 71-87页

作者： Yu Wei Lei bi Xianhui Lu Kunpeng Wang SKLOIS Institute of Information EngineeringCASBeijingChina School of Cyber Security University of Chinese Academy of SciencesBeijingChina

The Learning With Errors(LWE)problem is widely used in lattice-based cryptography,which is the most promising post-quantum cryptography direction.There are a variety of LWE-solving methods,which can be classified into four groups:lattice methods,algebraic methods,combinatorial methods,and exhaustive searching.The Blum–Kalai–Wasserman(BKW)algorithm is an important variety of combinatorial algorithms,which was first presented for solving the Learning Parity With Noise(LPN)problem and then extended to solve LWE.In this paper,we give an overview of BKW algorithms for solving LWE.We introduce the framework and key techniques of BKW algorithms and make comparisons between different BKW algorithms and also with lattice methods by estimating concrete security of specific LWE instances.We also briefly discuss the current problems and potential future directions of BKW algorithms.

关键词： Post-quantum cryptography Learning with errors problem Lattice-based cryptography Security estimation

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Energy budget of cold and hot gas-solid fluidized beds through CFD-DEM simulations

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Particuology 2024年第6期89卷 153-171页

作者： Lei bi Yunpeng Jiao Chunjiang Liu Jianhua Chen Wei Ge School of Chemical Engineering and Technology Tianjin UniversityTianjin 300072China State Key Laboratory of Multiphase Complex Systems Institute of Process EngineeringChinese Academy of SciencesBeijing100190China School of Chemical Engineering University of Chinese Academy of SciencesBeijing 100049China

Direct energy budget is carried out for both cold and hot flow in gas–solid fluidization systems.First,the energy paths are proposed from thermodynamic viewpoints.Energy consumption means total power input to the specific system,and it can be decomposed into energy retention and energy dissipation.Energy retention is the variation of accumulated mechanical energy in the system,and energy dissipation is the energy converted to heat by irreversible processes.Then based on the Computational Fluid Dynamics-Discrete Element Method(CFD-DEM)framework,different energy terms are quantified from the specific flow elements of fluid cells and particles as well as their interactions with the wall.In order to clarify the energy budget,it is important to identify which system is studied:the particle-fluid system or the particle sub-system.For the cold flow,the total energy consumption of the particle sub-system can well indicate the onset of bubbling and turbulent,while the variation of local energy consumption terms can reflect the evolution of heterogeneous structures.For the hot flow,different heat transfer mechanisms are analyzed and the solver is modified to reproduce the experimental results.The impact of the heat transfer mechanisms and heat production on energy consumption is also investigated.The proposed budget method has proven to be energy-conservative and easy to conduct,and it is hopeful to be applied to other multiphase flow systems.

关键词： Energy budget Gas-solid fluidization CFD-DEM Regime transition Heat transfer mechanism

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