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Multi-omics analysis of attenuated variant reveals potential evaluation marker of host damaging for SARS-CoV-2 variants

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science china(Life sciences) 2024年第1期67卷 83-95页

作者： Guangshan Xie Lin Zhu Siwen liu Cun Li xin Diao Yanhao Zhang Xiuli Su Yuanyuan Song Guodong Cao Li Zhong Pui wang Xiaojuan liu Bobo Wing-Yee Mok Shusheng Zhang Dong-Yan Jin Jie Zhou Honglin Chen Zongwei cai State Key laboratory of Environmental and Biological Analysis Hong Kong Baptist UniversityHong Kong SARChina State Key laboratory for Emerging Infectious Diseases and Department of MicrobiologyLi Ka Shing Faculty of MedicineThe University of Hong KongHong Kong SARChina College of Chemistry Zhengzhou UniversityZhengzhou 450001China school of Biomedical sciences The University of Hong KongHong Kong SARChina HKBU Shenzhen Institute of Research and Continuing Education Shenzhen 518000China

SARS-CoV-2 continues to threaten human society by generating novel variants via mutation and *** high number of mutations that appeared in emerging variants not only enhanced their immune-escaping ability but also made it difficult to predict the pathogenicity and virulence based on viral nucleotide *** markers for evaluating the pathogenicity of new variants are therefore *** comparing host responses to wild-type and variants with attenuated pathogenicity at proteome and metabolome levels,six key molecules on the polyamine biosynthesis pathway including putrescine,SAM,dc-SAM,ODC1,SAMS,and SAMDC were found to be differentially upregulated and associated with pathogenicity of *** validate our discovery,human airway organoids were subsequently used which recapitulates SARS-CoV-2 replication in the airway epithelial cells of COVID-19 *** ODC1 as a proof-ofconcept,differential activation of polyamine biosynthesis was found to be modulated by the renin-angiotensin system(RAS)and positively associated with ACE2 *** experiments demonstrated that ODC1 expression could be differentially activated upon a panel of SARS-CoV-2 variants of concern(VOCs)and was found to be correlated with each VOCs’pathogenic ***,the presented study revealed the discriminative ability of key molecules on polyamine biosynthesis as a predictive marker for virulence evaluation and assessment of SARS-CoV-2 variants in cell or organoid *** work,therefore,presented a practical strategy that could be potentially applied as an evaluation tool for the pathogenicity of current and emerging SARS-CoV-2 variants.

关键词： SARS-CoV-2 multi-omics attenuated variant predictive pathogenic marker polyamine biosynthesis

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Critical Solvation Structures Arrested Active Molecules for Reversible Zn Electrochemistry

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Nano-Micro Letters 2024年第8期16卷 64-78页

作者： Junjie Zheng Bao Zhang xin Chen Wenyu Hao Jia Yao Jingying Li Yi Gan Xiaofang wang xingtai liu Ziang Wu Youwei liu Lin Lv Li Tao Pei Liang Xiao Ji Hao wang Houzhao Wan Hubei Yangtze Memory Laboratories Wuhan 430205People’s Republic of China Hubei Key laboratory of Micro‑Nanoelectronic Materials and Devices School of MicroelectronicsHubei UniversityWuhan 430062People’s Republic of China school of Physical and Mathematical sciences Nanyang Technological UniversitySingapore 637371Singapore school of Optical and Electronic Information Huazhong University of Science and TechnologyWuhan 430074People’s Republic of China Institute of optoelectronics technology China Jiliang UniversityHangzhou 310018People’s Republic of China

Aqueous Zn-ion batteries(AZIBs)have attracted increasing attention in next-generation energy storage systems due to their high safety and ***,the side reactions,dendrites and hydrogen evolution effects at the zinc anode interface in aqueous electrolytes seriously hinder the application of aqueous zinc-ion ***,we report a critical solvation strategy to achieve reversible zinc electrochemistry by introducing a small polar molecule acetonitrile to form a“catcher”to arrest active molecules(bound water molecules).The stable solvation structure of[Zn(H_(2)O)_(6)]^(2+)is capable of maintaining and completely inhibiting free water ***[Zn(H_(2)O)_(6)]^(2+)is partially desolvated in the Helmholtz outer layer,the separated active molecules will be arrested by the“catcher”formed by the strong hydrogen bond N-H bond,ensuring the stable desolvation of Zn^(2+).The Zn||Zn symmetric battery can stably cycle for 2250 h at 1 mAh cm^(-2),Zn||V_(6)O_(13) full battery achieved a capacity retention rate of 99.2%after 10,000 cycles at 10 A g^(-1).This paper proposes a novel critical solvation strategy that paves the route for the construction of high-performance AZIBs.

关键词： Zinc-ion battery Critical solvation Helmholtz layer Arrest active molecule Reversible zinc anode

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High-quality Gossypium hirsutum and Gossypium barbadense genome assemblies reveal the landscape and evolution of centromeres

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Plant Communications 2024年第2期5卷 135-150页

作者： xing Chang xin He Jianying Li Zhenping liu Ruizhen Pi Xuanxuan Luo Ruipeng wang Xiubao Hu Sifan Lu Xianlong Zhang Maojun wang national Key laboratory of Crop Genetic Improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhanChina

Centromere positioning and organization are crucial for genome evolution;however,research on centro-mere biology is largely influenced by the quality of available genome ***,we combined Oxford Nanopore and Pacific Biosciences technologies to de novo assemble two high-quality reference genomes for Gossypium hirsutum(TM-1)and Gossypium barbadense(3-79).Compared with previously published reference genomes,our assemblies show substantial improvements,with the contig N50 improved by 4.6-fold and 5.6-fold,respectively,and thus represent the most complete cotton genomes to *** high-quality reference genomes enable us to characterize 14 and 5 complete centromeric regions for *** and ***,*** data revealed that the centromeres of allotetraploid cotton are occupied by members of the centromeric repeat for maize(CRM)and Tekay long terminal repeat families,and the CRM family reshapes the centromere structure of the At subgenome after *** two intertwined families have driven the convergent evolution of centromeres between the two subgenomes,ensuring centromere function and genome *** addition,the reposi-tioning and high sequence divergence of centromeres between *** and *** have contributed to speciation and centromere *** study sheds light on centromere evolution in a sig-nificant crop and provides an alternative approach for exploring the evolution of polyploid plants.

关键词： genome assembly centromere architecture convergent evolution polyploidization

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Microstructure Characteristics and Elevated Temperature Mechanical Properties of a B Containedβ-solidifiedγ-TiAl Alloy

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Journal of wuhan university of technology(Materials science) 2024年第3期39卷 738-746页

作者：王秀琦 GUO Ruiqi 刘国怀 LI Tianrui YANG Yuxuan CHEN Yang xin Meiling wang Zhaodong State Key laboratory of Rolling and Automation Northeastern UniversityShenyang 110819China school of Materials science and engineering Harbin Institute of Technology at ShenzhenShenzhen 518055China school of Metallurgical engineering Anhui University of TechnologyMaanshan 243000China

The improved microstructure and enhanced elevated temperature mechanical properties of Ti-44Al-5Nb-(Mo,V,B)alloys were obtained by vacuum arc re-melting(VAR)and primary annealing heat treatment(HT)of 1260℃/6 h/Furnace cooling(FC).The phase transformation,microstructure evolution and tensile properties for as-cast and HTed alloys were *** indicate that three main phase transformation points are determined,T_(eut)=1164.3℃,T_(γsolv)=1268.3℃and T_(βtrans)=1382.8℃.There are coarse lamellar colonies(300μm in length)and neighbor reticular B2 andγgrain(3-5μm)in as-cast alloy,while lamellar colonies are markedly refined and multi-oriented(20-50μm)as well as the volume fraction and grain sizes of equiaxedγand B2 phases(about 15μm)significantly increase in as-HTed *** transformations involvingα+γ→α+γ+β/B2 and discontinuousγcoarsening contribute to the above ***(1-3μm)act as nucleation sites forβ_(eutectic) and produce massiveβgrains with different orientations,thus effectively refining the lamellar colonies and forming homogeneous multi-phase *** curves show both the alloys exhibit suitable performance at 800℃.As-cast alloy shows a higher ultimate tensile stress of 647 MPa,while a better total elongation of more than 41%is obtained for as-HTed *** mechanical properties improvement is mainly attributed to fine,multi-oriented lamellar colonies,coordinated deformation of homogeneous multi-phase microstructure and borides within lamellar interface preventing crack propagation.

关键词： TiAl alloy phase transformation heat treatment boride microstructure mechanical properties

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***2 regulates plant height by affecting the main inflorescence length and first effective branch height in Brassica napus L.

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The Crop Journal 2024年第4期12卷 1102-1111页

作者： Chengke Pang Jun Yu Liang Zhang Min Tang Hongfang liu Ying cai Feng Chen Jiefu Zhang Wei Hua Xiaodong wang Ming Zheng Oil Crops Research Institute of the Chinese Academy of Agricultural sciences Key Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of Agriculture and Rural AffairsWuhan 430062HubeiChina Key laboratory of Cotton and Rapeseed Ministry of Agriculture and Rural AffairsKey Laboratory of Jiangsu Province for AgrobiologyInstitute of Industrial CropsJiangsu Academy of Agricultural SciencesNanjing 210014JiangsuChina national Key laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhan 430070HubeiChina

Rapeseed(Brassica napus L.)is one of the main oil crops in the world,and increasing its yield is of great significance for ensuring the safety of edible ***,improving rapeseed plant architecture is an effective way to increase rapeseed yield with higher planting ***,the regulatory mechanism of rapeseed plant architecture is poorly *** this study,a dwarf rapeseed mutant dwarf08(df08)is obtained by ethyl methane sulfonate(EMS)-*** decrease in plant height of df08 is mainly caused by the reduction in main inflorescence length and first effective branch height and controlled by a single semi-dominant *** hybrid plants(F1)show a semi-dwarf *** map-based cloning and transgenic assay,we confirm that the nonsynonymous single nucleotide variant(SNV)(C to T)in ***2,which is homologous with Arabidopsis(Arabidopsis thaliana)BIN2,is responsible for the dwarfism of ***2 interacts with BnaBZR1/BES1 and involves in brassinosteroids(BRs)signal *** to Leucine substitution in 284(P284L)enhances the protein stability of ***2-D,disrupts BRs signal transduction and affects the expression of genes regulating cell division,leading to dwarfism of *** study provides a new insight for the mechanism of rapeseed plant height regulation and creates an elite germplasm that can be used for genetic improvement of rapeseed architecture.

关键词： Brassica napus Plant height Brassinosteroids BIN2

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Di-and tri-methylation of histone H3K36 play distinct roles in DNA double-strand break repair

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science china(Life sciences) 2024年第6期67卷 1089-1105页

作者： Runfa Chen Meng-Jie Zhao Yu-Min Li Ao-Hui liu Ru-xin wang Yu-Chao Mei Xuefeng Chen Hai-Ning Du Hubei Key laboratory of Cell Homeostasis College of Life SciencesTaiKang Center for Life and Medical SciencesFrontier Science Center for Immunology and MetabolismHubei Clinical Research Center of Emergency and ResuscitationEmergency Center of Zhongnan HospitalWuhan UniversityWuhan 430072China Hubei Key laboratory of Cell Homeostasis College of Life SciencesTaiKang Center for Life and Medical SciencesFrontier Science Center for Immunology and MetabolismWuhan UniversityWuhan 430072China

Histone H3 Lys36(H3K36)methylation and its associated modifiers are crucial for DNA double-strand break(DSB)repair,but the mechanism governing whether and how different H3K36 methylation forms impact repair pathways is ***,we unveil the distinct roles of H3K36 dimethylation(H3K36me2)and H3K36 trimethylation(H3K36me3)in DSB repair via non-homologous end joining(NHEJ)or homologous recombination(HR).Yeast cells lacking H3K36me2 or H3K36me3 exhibit reduced NHEJ or HR efficiency.y Ku70 and Rfa1 bind H3K36me2-or H3K36me3-modified peptides and chromatin,*** these interactions impairs y Ku70 and Rfa1 recruitment to damaged H3K36me2-or H3K36me3-rich loci,increasing DNA damage sensitivity and decreasing repair ***,H3K36me2-enriched intergenic regions and H3K36me3-enriched gene bodies independently recruit y Ku70 or Rfa1 under DSB ***,human KU70 and RPA1,the homologs of y Ku70 and Rfa1,exclusively associate with H3K36me2 and H3K36me3 in a conserved *** findings provide valuable insights into how H3K36me2 and H3K36me3 regulate distinct DSB repair pathways,highlighting H3K36 methylation as a critical element in the choice of DSB repair pathway.

关键词： histone H3K36 methylation Ku70 RPA non-homologous end joining homologous recombination

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Observation of spectral lines in the exceptional GRB 221009A

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science china(Physics,Mechanics & Astronomy) 2024年第8期67卷 187-206页

作者： Yan-Qiu Zhang Shao-Lin Xiong Ji-Rong Mao Shuang-Nan Zhang wang-Chen Xue Chao Zheng Jia-Cong liu Zhen Zhang Xi-Lu wang Ming-Yu Ge Shu-Xu Yi Li-Ming Song Zheng-Hua An Ce cai xin-Qiao Li Wen-Xi Peng Wen-Jun Tan Chen-Wei wang Xiang-Yang Wen Yue wang Shuo Xiao Fan Zhang Peng Zhang Shi-Jie Zheng Key laboratory of Particle Astrophysics Institute of High Energy PhysicsChinese Academy of SciencesBeijing 100049China university of Chinese Academy of sciences Beijing 100049China Yunnan Observatories Chinese Academy of SciencesKunming 650011China Center for Astronomical Mega-science Chinese Academy of SciencesBeijing 100012China Key laboratory for the Structure and Evolution of Celestial Objects Chinese Academy of SciencesKunming 650216China College of Physics and Hebei Key laboratory of Photophysics Research and Application Hebei Normal UniversityShijiazhuang 050024China Guizhou Provincial Key laboratory of Radio Astronomy and Data Processing Guizhou Normal UniversityGuiyang 550001China College of Electronic and Information engineering Tongji UniversityShanghai 201804China

As the brightest gamma-ray burst ever observed,GRB 221009A provided a precious opportunity to explore spectral line *** this article,we performed a comprehensive spectroscopy analysis of GRB 221009A jointly with GECAM-C and Fermi/GBM data to search for emission and absorption *** the first time we investigated the line feature throughout this GRB including the most bright part where many instruments suffered problems,and identified prominent emission lines in multiple time *** central energy of the Gaussian emission line evolves from about 37 to 6 MeV,with a nearly constant ratio(about 10%)between the line width and central ***,we find that both the central energy and the energy flux of the emission line evolve with time as a power law decay with power law index of–1 and–2,*** suggest that the observed emission lines most likely origin from the blue-shifted electron positron pair annihilation 511 ke V *** find that a standard high latitude emission scenario cannot fully interpret the observation,thus we propose that the emission line comes from some dense clumps with electron positron pairs traveling together with the *** this scenario,we can use the emission line to directly,for the first time,measure the bulk Lorentz factor of the jet(Γ)and reveal its time evolution(i.e.,Γ~t^(-1))during the prompt ***,we find that the flux of the annihilation line in the co-moving frame keeps *** discoveries of the spectral line features shed new and important lights on the physics of GRB and relativistic jet.

关键词： GRB GRB 221009A emission line

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Role of mitophagy in head and neck squamous cell carcinoma:Prognosis and immune insights

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Radiation Medicine and Protection 2024年第2期5卷 100-112页

作者： Qin Ding Wei liu Junping Pan Lihua wang Wenquan Hong Sunqin cai xin Chen Duanyu Lin Sufang Qiu Department of Radiation Oncology Clinical Oncology School of Fujian Medical UniversityFujian Cancer Hospital(Fujian Branch of Fudan University Shanghai Cancer Center)Fuzhou 350014China Fujian Provincial Key laboratory of Translational Cancer Medicine Fuzhou 350014China Department of Nuclear Medicine Clinical Oncology School of Fujian Medical UniversityFujian Cancer Hospital(Fujian Branch of Fudan University Shanghai Cancer Center)Fuzhou 350014China

Objective:To explore the correlation between mitophagy and the tumor microenvironment(TME)in patients with head and neck squamous cell carcinoma(HNSCC),with an aim to enhance therapeutic efficacy for ***:A machine learning-based multigene prognostic signature was developed based on mitophagy-related differentially expressed genes(MRGs)identified in The Cancer Genome Atlas *** signature was correlated with the TME using gene set enrichment *** association between this prognostic signature and various immunological features of the TME was explored,including status of tumor-infiltrating immune cells,expression of immune checkpoint molecules,and the *** validated the expression of hub gene CSNK2A2 and assessed its relationship with immunomarker *** PCR validated CSNK2A2 knockdown in HNSCC cell *** experiments including Transwell assays to determine cell migration and invasion,Cell Counting Kit 8 assay,and 5-ethynyl-2-deoxyuridine assay were performed to confirm the role of CSNK2A2 in ***,a subcutaneous xenograft model was generated in C3H mice to validate our ***:The MRG-based prognostic signature showed excellent predictive ***-risk patients had significantly shorter progression-free and overall survival(P1)than low-risk ***8+T cell infiltration was lower in high-risk groups,whereas low-risk groups showed higher immunological marker ***,the low-risk HNSCC subtype may benefit from immune therapy,while high-risk subtypes may benefit from chemotherapy(P1).CSNK2A2 was highly expressed and strongly correlated with CD8 and PD-L1 based on immunohistochemistry of the HNSCC tissue ***2A2 knockdown reduced cell migration,invasion,and proliferation,and arrested cells in G1 *** vivo,it led to slower tumor growth and smaller tumor ***:We established a potential prognostic signature that could impr

关键词： Head and neck squamous cell carcinoma Mitophagy Tumor microenvironment CSNK2A2 Prognostic model

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Facile Semiconductor p-n Homojunction Nanowires with Strategic p-Type Doping engineering Combined with Surface Reconstruction for Biosensing Applications

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Nano-Micro Letters 2024年第10期16卷 15-30页

作者： liuan Li Shi Fang Wei Chen Yueyue Li Mohammad Fazel Vafadar Danhao wang Yang Kang xin liu Yuanmin Luo Kun Liang Yiping Dang Lei Zhao Songrui Zhao Zongzhi Yin Haiding Sun iGaN laboratory School of MicroelectronicsUniversity of Science and Technology of ChinaHefei 230026People's Republic of China Department of Obstetrics and Gynecology The First Affiliated Hospital of Anhui Medical UniversityNo 218 Jixi RoadHefei 230022People's Republic of China Department of Electrical and Computer engineering McGill University3480 University StreetMontrealQC H3A 0E9Canada Union Hospital Tongji Medical CollegeHuazhong University of Science and TechnologyNo 1277 Jiefang Ave.Wuhan 430022People's Republic of China

Photosensors with versatile functionalities have emerged as a cornerstone for breakthroughs in the future optoelectronic systems across a wide range of *** particular,emerging photoelectrochemical(PEC)-type devices have recently attracted extensive interest in liquid-based biosensing applications due to their natural electrolyte-assisted operating ***,a PEC-type photosensor was carefully designed and constructed by employing gallium nitride(GaN)p-n homojunction semiconductor nanowires on silicon,with the p-GaN segment strategically doped and then decorated with cobalt-nickel oxide(CoNiO_(x)).Essentially,the p-n homojunction configuration with facile p-doping engineering improves carrier separation efficiency and facilitates carrier transfer to the nanowire surface,while CoNiO_(x)decoration further boosts PEC reaction activity and carrier dynamics at the nanowire/electrolyte ***,the constructed photosensor achieves a high responsivity of 247.8 mA W^(-1)while simultaneously exhibiting excellent operating ***,based on the remarkable stability and high responsivity of the device,a glucose sensing system was established with a demonstration of glucose level determination in real human *** work offers a feasible and universal approach in the pursuit of high-performance bio-related sensing applications via a rational design of PEC devices in the form of nanostructured architecture with strategic doping engineering.

关键词： p-n GaN nanowires Strategic p-doping Surface decoration Photoelectrochemical sensor Glucose sensing

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Decitabine in combination with idarubicin within a modified busulfan/cyclophosphamide conditioning regimen for patients with advanced myelodysplastic syndrome:A prospective multicenter clinical cohort study

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Chinese Medical Journal 2024年第9期137卷 1115-1117页

作者： Yigeng Cao Mingyang wang Fuxu wang Wenwen Guo Yueshen Ma Xiaoyun Li Yi He Aiming Pang Rongli Zhang Weihua Zhai xin Chen Qiaoling Ma Jialin Wei Donglin Yang Yong Huang Dan Feng Jia liu xin Gao Shupeng Wen Wen wang Tao wang Ying Li Xiaosheng Fang Yingchun Li Xiaohan Zhang Yun cai Yongqi wang Weijie Cao Runqing Lu Sizhou Feng Rong Guo Yuewen Fu xin Du Zhuogang liu xin wang Ling wang Liangming Ma Chuanfang liu Xuejun Zhang Mingzhe Han Erlie Jiang Department of Hematopoietic Stem Cell Transplantation Center State Key Laboratory of Experimental HematologyNational Clinical Research Center for Blood DiseasesHaihe Laboratory of Cell EcosystemInstitute of HematologyBlood Diseases HospitalChinese Academy of Medical Sciences&Peking Union Medical CollegeTianjin 300000China Department of Hematology Second Hospital of Hebei Medical UniversityHebei Key Laboratory of HematologyShijiazhuangHebei 050000China Center for Information and Resource State Key Laboratory of Experimental HematologyNational Clinical Research Center for Blood DiseasesHaihe Laboratory of Cell EcosystemInstitute of HematologyBlood Diseases HospitalChinese Academy of Medical Sciences&Peking Union Medical CollegeTianjin 300000China Department of Hematology Qilu Hospital of Shandong UniversityJinanShandong 250000China Department of Hematology Shanxi Bethune HospitalThird Hospital of Shanxi Medical UniversityTaiyuanShanxi 030032China Department of Hematology Qingdao Central HospitalUniversity of Health and Rehabilitation SciencesQingdaoShandong 266042China Department of Hematology Shandong Provincial HospitalCheeloo College of MedicineShandong UniversityJinanShandong 250000China Department of Hematology Shandong Provincial Hospital Affiliated to Shandong First Medical UniversityJinanShandong 250000China Department of Hematology Shengjing Hospital of China Medical UniversityShenyangLiaoning 110000China Department of Hematology Shenzhen Second People’s HospitalThe First Affiliated Hospital of Shenzhen UniversityShenzhen University School of MedicineShenzhenGuangdong 518000China Department of Hematology Henan Cancer HospitalCancer Hospital Affiliated Zhengzhou UniversityZhengzhouHenan 450000China Department of Hematology Department of HematologyThe First Affiliated Hospital of Zhengzhou UniversityZhengzhouHenan 450000China

To the Editor:Allogeneic hemopoietic stem cell transplantation(allo-HSCT)represents the only long-term survival treatment choice for patients with myelodysplastic syndromes(MDS)and MDS/myeloproliferative neoplasm(MPN).Unfortunately,post-hemopoietic stem cell transplantation(HSCT)relapse remains a cause of treatment failure and the results of salvage treatments are *** better conditioning regimens is urgently *** studies have shown synergistic antileukemic effects between decitabine(DEC)and idarubicin(IDA).[1]In an attempt to design a conditioning strategy with very low toxicity but considerable myelosuppressive activity and potential immune-enhancing effects for patients with high-risk MDS and MDS/MPN,we combined DEC and IDA with busulfan,cyclophosphamide,andudarabine for a modied myeloablative regimen in this prospective,multicenter cohort study(hereafter referred to as the“DEC/IDA study”).

关键词： regimen myelo patients

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