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Integrated Single-cell Multiomic Analysis of HIV Latency Reversal Reveals Novel Regulators of Viral Reactivation

Genomics, Proteomics & Bioinformatics 2024年第1期22卷 67-88页

作者： Manickam Ashokkumar Wenwen Mei jackson J.Peterson Yuriko Harigaya David M.Murdoch David M.Margolis Caleb Kornfein Alex Oesterling Zhicheng Guo Cynthia D.Rudin Yuchao Jiang Edward P.Browne Department of Medicine University of North Carolina at Chapel HillChapel HillNC 27599USA HIV Cure Center University of North Carolina at Chapel HillChapel HillNC 27599USA Department of Biostatistics University of North Carolina at Chapel HillChapel HillNC 27599USA Department of Microbiology and Immunology University of North Carolina at Chapel HillChapel HillNC 27599USA Department of Genetics University of North Carolina at Chapel HillChapel HillNC 27599USA Department of Medicine Duke UniversityDurhamNC 27708USA Department of Computer Science Duke UniversityDurhamNC 27708USA Department of Statistics Texas A&M UniversityCollege StationTX 77843USA Department of Biology Texas A&M UniversityCollege StationTX 77843USA Department of Biomedical Engineering Texas A&M UniversityCollege StationTX 77843USA

Despite the success of antiretroviral therapy,human immunodeficiency virus(HIV)cannot be cured because of a reservoir of latently infected cells that evades *** understand the mechanisms of HIV latency,we employed an integrated single-cell RNA sequencing(scRNA-seq)and single-cell assay for transposase-accessible chromatin with sequencing(scATAC-seq)approach to simultaneously profile the transcriptomic and epigenomic characteristics of~125,000 latently infected primary CD4^(+)T cells after reactivation using three different latency reversing *** expressed genes and differentially accessible motifs were used to examine transcriptional pathways and transcription factor(TF)activities across the cell *** identified cellular transcripts and TFs whose expression/activity was correlated with viral reactivation and demonstrated that a machine learning model trained on these data was 75%-79%accurate at predicting viral ***,we validated the role of two candidate HIV-regulating factors,FOXP1 and GATA3,in viral *** data demonstrate the power of integrated multimodal single-cell analysis to uncover novel relationships between host cell factors and HIV latency.

关键词： HIV latency reversal Primary CD4þT cell Single-cell multiomics HIV-regulating factor Machine learning

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Protocol for the development and validation of a clinical measurement tool for fear of disease progression and recurrence in cardiac patients

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Chronic Diseases and Translational Medicine 2024年第3期10卷 195-204页

作者： Sarah T.Clarke Michael Le Grande Barbara M.Murphy Robert Hester Alun C.jackson Melbourne School of Psychological Sciences University of MelbourneParkvilleVictoriaAustralia Australian Centre for Heart Health MelbourneVictoriaAustralia Centre on Behavioral Health University of Hong KongPokfulamHong KongChina

Introduction: One in two cardiac patients fear having another heart event or their heart condition getting worse. Research in other chronic illnesses demonstrates that screening for fear of progression and recurrence is vital for adequately addressing such concerns in clinical care. The current project aims to develop and validate a measure for fear of progression and recurrence in cardiac ***: The Fear of Cardiac Recurrence and Progression Scale (FCRP) will be developed through a multistep process. An initial item pool will be generated through a review of the literature and existing measures and consultation with and feedback from key informants. The item pool will be tested in a sample of over 250 adults who have ever had an acute coronary event, undergone cardiac surgery, or a chronic cardiac condition. Exploratory factor analysis will be used to identify the underlying factors, and Rasch analysis will be used to reduce the number of items. A short form version of the FCRP will be developed for use as a brief screening tool, informed by clinical relevance and Rasch psychometric ***: While many cardiac patients experience fears related to the progression or recurrence of their illness, there remains the need for a validated tool with which these concerns can be identified and measured. It is expected that the design and validation of the FCRP will aid identification of cardiac patients suffering from clinically significant levels of fear of progression and recurrence and facilitate the design of tailored psychological interventions to target these fears.

关键词： anxiety cardiac anxiety cardiac recovery cardiac rehabilitation depression fear of progression fear of recurrence psychological measurement psychosocial screening

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A Domestication-Associated Gene GmPRR3b Regulates the Circadian Clock and Flowering Time in Soybean

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Molecular Plant 2020年第5期13卷 745-759页

作者： Cong Li Ying-hui Li Yanfei Li Hongfeng Lu Huilong Hong Yu Tian Hongyu Li Tao Zhao Xiaowei Zhou Jun Liu Xinan Zhou Scott a.jackson Bin Liu Li-juan Qiu The National Key Facility for Crop Gene Resources and Genetic Improvement(NFCRI) Institute of Crop ScienceChinese Academy of Agricultural SciencesBeijingP.R.China Novogene Bioinformatics Institute BeijingP.R.China Key Laboratory of Oil Crop Biology(MOA) Oil Crops Research Institute of Chinese Academy of Agriculture SciencesWuhanChina Center for Applied Genetic Technologies University of GeorgiaAthensGAUSA

Improved soybean cultivars have been adapted to grow at a wide range of latitudes,enabling expansion of cultivation ***,the genetic basis of this broad adaptation is still not ***,we report the identification of GmPRR3b as a major flowering time regulatory gene that has been selected during domestication and genetic improvement for geographic *** a genome-wide association study of a diverse soybean landrace panel consisting of 279 accessions,we identified 16 candidate quantitative loci associated with flowering time and maturity *** strongest signal resides in the known flowering gene E2,verifying the effectiveness of our *** detected strong signals associated with both flowering and maturity time in a genomic region containing *** analysis revealed that GmPRR3bH6 is the major form of GmPRR3b that has been utilized during recent breeding of modern *** profiling analysis showed that GmPRR3bH6 displays rhythmic and photoperiod-dependent expression and is preferentially induced under long-day *** of GmPRR3bH6 increased main stem node number and yield,while knockout of GmPRR3bH6 using CRISPR/Cas9 technology delayed growth and the floral ***3bH6 appears to act as a transcriptional repressor of multiple predicted circadian clock genes,including GmCCAIa,which directly upregulates J/GmELF3a to modulate flowering *** causal SNP(Chr12:5520945)likely endows GmPRR3bH6 a moderate but appropriate level of activity,leading to early flowering and vigorous growth traits preferentially selected during broad adaptation of landraces and improvement of cultivars.

关键词： flowering time soybean landrace domestication genome-wide association study GmPRR3b circadian clock

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基于中国全科医生的糖尿病医患沟通技能培训设计与开发

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中国全科医学 2024年第7期27卷 816-821页

作者：姚弥林恺樊洁婷纪欣鑫王颖董爱梅韩晓宁齐建光迟春花 Shamil Haroon Dawn jackson KK Cheng Richard Lehman 北京大学第一医院全科医学科北京市100034 北京大学医学部全科医学系北京市100191 汕头大学医学院第一附属医院全科医学中心广东省汕头市515041 火箭军特色医学中心内分泌科北京市100088 汕头大学医学院广东省汕头市515041 北京大学第一医院教育处北京市100034 北京大学第一医院内分泌科北京市100034 北京大学第一医院心血管科北京市100034 北京大学第一医院儿科北京市100034 北京大学第一医院健康管理中心北京市100034 英国伯明翰大学应用健康研究院伯明翰B152TT 英国伯明翰大学医学院伯明翰B152TT

全科医生作为居民健康“守门人”,在基层糖尿病等慢性疾病管理中发挥着重要作用。糖尿病管理可以延缓病情进展、减少糖尿病并发症和改善患者健康结局,这需要患者和医生之间的有效沟通并互相协作。全科医生具备良好的沟通能力有助于与糖... 详细信息

全科医生作为居民健康“守门人”,在基层糖尿病等慢性疾病管理中发挥着重要作用。糖尿病管理可以延缓病情进展、减少糖尿病并发症和改善患者健康结局,这需要患者和医生之间的有效沟通并互相协作。全科医生具备良好的沟通能力有助于与糖尿病患者建立长期的照护关系、帮助患者建立有效的自我管理技能。本文总结了本研究团队在多种理论框架指导下的全科医生糖尿病沟通技能培训的设计和开发:基于系统综述发现的循证依据,通过定性研究进一步探索糖尿病患者与全科医生的沟通体验和想法,以及混合方法研究设计理念获取全科医学对于医患沟通培训内容的优先排序,旨在为高质量的基层糖尿病管理提供新思路,并为基于证据和医学教育框架设计全科医生相关培训项目提供借鉴。

关键词：糖尿病沟通技能在职培训培训设计全科医生

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Concept of a Pitot Tube Able to Detect Blockage by Ice, Volcanic Ash, Sand and Insects, and to Clear the Tube

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Photonic Sensors 2015年第4期5卷 298-303页

作者： David A. jackson School of Physical Sciences Applied Optics Groups University of Kent UK

A conceptual coaxial Pitot tube （PT） has been developed using fiber optic sensors combined with actuators to monitor and maintain its correct operation under different environmental conditions. Experiments were performed showing that the dynamic and static tubes can be cleared of ice. It was also demonstrated that the dynamic tube could be cleared of dust and sand which was not the case for the static tube in the coaxial configuration. An approach was proposed to overcome this problem involving a conventional configuration where the static tube was operated independently orthogonal to the dynamic tube, and a second set of sensors and actuators was used. Sensors and associated actuators were developed for temperature and intensity for a linear PT. The aim of this work is to propose a solution for a problem that has caused the loss of the lives of many passengers and crew of aircraft. Resources were not available to test a full implementation of a PT incorporating the proposed modifications.

关键词： Pitot tube instrumentation FBG spectrometer pressure temperature optical intensity

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Nanostructured grinding wheels for ultra-precision engineering applications

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Nanotechnology and Precision Engineering 2021年第3期4卷 63-75页

作者： M.J.jackson Integrated Studies College of Technology and AviationKansas State UniversitySalinaKansas 67401USA

Manufacturers face challenges when dealing with abrasives that lose roundness,wear excessively,and suffer from pitting of the surface of the grinding wheel that needs rectification using dressing *** abrasive grits manufactured by hybrid fusion processes and by sintering/extrusion/printing processes are found to reduce pitting quite *** phenomenon of wheel collapse is increasing and cycle times developed during the grinding of aerospace alloys are much smaller compared to using conventional *** paper reviews the phenomenon of wheel collapse induced by pitting and takes a critical look at the production and analysis of hybrid fused and printed/sintered abrasives.A mathematical analysis is carried out of the diffusion of primary and secondary phases due to mechanical and ultrasonic agitation with the aim of producing abrasive grits with improved strength and *** developments in extruded,printed,and sintered grits for use in precision grinding applications are critically *** paper concludes by explaining how such abrasives are used in practice by industrial manufacturers of high-precision products.

关键词： Nanotechnology Abrasives Alloys Finishing Grinding Machining

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对250位成年双胞胎的宏基因组鸟枪法测序发现影响肠道菌群的遗传与环境因素

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科学新闻 2017年第4期 186-186页

作者： Hailiang Xie Ruijin Guo Huanzi Zhong Qiang Feng Zhou Lan Bingcai Qin Kirsten J.Ward matthew a.jackson Yan Xia Xu Chen Bing Chen Huihua Xia Changlu Xu Fei Li Xun Xu Jumana Yousuf Al-Aama Huanming Yang Jian Wang Karsten Kristiansen Jun Wang Claire J.Steves Jordana T.Bell 李俊桦 Timothy D.Spector 贾慧珏深圳华大基因研究院宏基因组研究所霍华德休斯医学研究所北卡罗来纳大学教堂山分校

文章简介肠道菌群通常被看作是影响人体健康的环境因素。双胞胎这一群体是系统地解析塑造肠道菌群的遗传与环境因素的绝佳对象。本研究首次对较大规模的双胞胎人群(取自Twin UK队列的250人)的粪便样品进行宏基因组鸟枪法测序,并构建最... 详细信息

文章简介肠道菌群通常被看作是影响人体健康的环境因素。双胞胎这一群体是系统地解析塑造肠道菌群的遗传与环境因素的绝佳对象。本研究首次对较大规模的双胞胎人群(取自Twin UK队列的250人)的粪便样品进行宏基因组鸟枪法测序,并构建最完整参考基因集。研究发现肠道菌群

关键词：肠道菌群双胞胎深圳华大基因研究院宏基因组测序

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Visual outcomes 24 months after LaserACE

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Eye and Vision 2017年第1期4卷 70-80页

作者： AnnMarie Hipsley David Hui-Kang Ma Chi-Chin Sun Mitchell a.jackson Daniel Goldberg Brad Hall Ace Vision Group Inc 39655 Eureka DriveNewarkCA 94560USA Department of Ophthalmology Chang Gung Memorial HospitalKweishanTaoyuanTaiwan Department of Chinese Medicine Chang Gung UniversityKweishanTaoyuanTaiwan Center for Tissue Engineering Chang Gung Memorial HospitalKweishanTaoyuanTaiwan Department of Ophthalmology Chang Gung Memorial HospitalKeelungTaiwan jackson Eye Lake VillaILUSA Drexel College of Medicine PhiladelphiaPAUSA Sengi Data CambridgeONCanada

Background:To evaluate the effects on near and intermediate visual performance after bilateral Laser Anterior Ciliary Excision(LaserACE)***:LaserACE surgery was performed using the VisioLite 2.94μm erbium:yttrium-aluminum-garnet(Er:YAG)ophthalmic laser system in 4 oblique quadrants on the sclera over the ciliary muscle in 3 critical zones of physiological importance(over the ciliary muscles and posterior zonules)with the aim to improve natural dynamic accommodative *** was performed on 26 patients(52 eyes).Outcomes were analyzed using visual acuity testing,Randot stereopsis,and the CatQuest 9SF patient ***:Binocular uncorrected near visual acuity(UNVA)improved from+0.20±0.16 logMAR preoperatively,to+0.12±0.14 logMAR at 24 months postoperatively(p=0.0014).There was no statistically significant loss in distance corrected near visual acuity(DCNVA).Binocular DCNVA improved from+0.21±0.17 logMAR preoperatively,to+0.11±0.12 logMAR at 24 months postoperatively(p=0.00026).Stereoacuity improved from 74.8±30.3 s of arc preoperatively,to 58.8±22.9 s of arc at 24 months postoperatively(p=0.012).There were no complications such as persistent hypotony,cystoid macular edema,or loss of best-corrected visual acuity(BCVA).Patients surveyed indicated reduced difficulty in areas of near vision,and were overall satisfied with the ***:Preliminary results of the LaserACE procedure show promising results for restoring visual performance for near and intermediate visual tasks without compromising distance vision and without touching the visual *** visual function and visual acuity improvements had clinical *** satisfaction was high postoperatively and sustained over 24 months.

关键词： Presbyopia Accommodation Clinical trial Asian eyes Visual acuity

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Recent results from the HERMES experiment

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Chinese Physics C 2010年第9期34卷 1247-1253页

作者： H.E.jackson Physics Division Argonne National Laboratory

Results are presented from the Hermes experiment which uses semi-inclusive deep inelastic lepton scattering to study the flavor structure of the *** have been accumulated for pion and kaon double spin asymmetries,single-spin azimuthal asymmetries for meson electroproduction,deep virtual Compton scattering （DVCS）,and meson *** results provide information on the properties of the strange sea in the proton,constraints on transverse momentum dependent quark parton distributions,and demonstrate the promise of DVCS for isolating the total angular momentum carried by the quarks in the proton.

关键词： lepton-nucleon scattering spin asymmetries strange quarks parton distributions

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Etiology matters:genetic and acquired prion diseases engage different mechanisms at a presymptomatic stage

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Neural Regeneration Research 2023年第12期18卷 2707-2708页

作者： Walker S.jackson Department of Biomedical and Clinical Sciences Wallenberg Center for Molecular MedicineLinköping UniversityLinköpingSweden

One of the most enigmatic problems in biomedical research surrounds the phenomenon that neurodegenerative diseases target specific cell types and brain *** is difficult to explain because the proteins that cause them are widely expressed,often highest in resistant *** mystery is further complicated by the fact that some disease-causing proteins are associated with multiple diseases.

关键词： diseases degenerative mechanisms

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