Next-Generation Sequencing Center for GHOSTing Hepatitis C Virus: Transforming Community Based Molecular Surveillance and Outbreak Investigation
丙型肝炎病毒重影的下一代测序中心:改变基于社区的分子监测和疫情调查
基本信息
- 批准号:10241239
- 负责人:
- 金额:$ 63.27万
- 依托单位:
- 依托单位国家:美国
- 项目类别:
- 财政年份:2017
- 资助国家:美国
- 起止时间:2017-08-15 至 2023-07-31
- 项目状态:已结题
- 来源:
- 关键词:AcuteAffectAmericanAmericasAppalachian RegionBioinformaticsCaringCenters for Disease Control and Prevention (U.S.)Cessation of lifeChronicCollectionCommunitiesCountyDNA Sequencing FacilityDataData AnalysesData Storage and RetrievalDepositionDevelopmentDiagnosticDisease OutbreaksDrug PrescriptionsDrug usageEpidemicEquipmentEventFundingGeneral HospitalsGenerationsGoalsGrantHIVHIV InfectionsHepatitisHepatitis B VirusHepatitis CHepatitis C virusHuman ResourcesIncidenceIndianaIndividualInformaticsInfrastructureInjecting drug userInstitutesInternationalInterventionInvestigationLaboratoriesLinkLinuxMaintenanceMassachusettsMolecularNational Institute of Allergy and Infectious DiseaseNatureOverdoseParticipantPharmaceutical PreparationsPharmacotherapyPhylogenetic AnalysisPlayProceduresProcessProgram Research Project GrantsQuality ControlRNA amplificationReportingResearch PersonnelRisk FactorsRoleRural CommunitySIVSamplingSerumShippingShipsSocial NetworkSpecimenSyphilis SerodiagnosisSystemTechnologyTimeTrainingUnited StatesUnited States National Institutes of HealthUnited States Public Health ServiceValidationVariantViralViral hepatitisWorkacute infectionanalytical toolbaseclinical research sitecommunity based participatory researchcomorbiditycost effectivedesignexperienceillicit opioidimprovedinjection drug useinstrumentnext generation sequencingnovelopioid epidemicopioid overdoseopioid usepathogenpathogenic virusprescription opioidpreventpublic health interventionresponserural areatransforming virustransmission processvirology
项目摘要
PROJECT SUMMARY:
The United States is in the midst of an enormous opioid epidemic. In 2015, more than 52,000 American's died
due to a drug overdose, over 60% of which were associated with prescription or illicit opioid use. Given that
injection drug use remains the major risk factor for HCV transmission, concomitantly the US has observed a
striking >150% increase in the incidence of HCV between 2010-2013, and a 364% increase in new HCV
infections between 2006 and 2012 in four Appalachian states, most notably in rural areas. As such, there is
urgent need to more strategically detect, prevent, treat and control HCV on a national level.
This U24 application proposes to develop a centralized GHOST laboratory to generate high-quality, high-
throughput HCV NGS data for the CDC's GHOST center and accompanying clinical research sites to aid in the
identification of HCV transmission links among persons who inject drugs (PWID); manage the collection and
storage of serum samples from HIV- and HCV-infected participants from the clinical research sites under RFA-
DA-17-014; and ship specimens to the CDC for syphilis testing and phylogenetic mapping for HIV and HCV.
This proposal builds on the investigators' strong track record in generating large-scale Sanger and next-
generation sequencing (NGS) data for highly variable pathogens such as HCV and HIV, development and
maintenance of robust SOPs for reducing contamination and sample mix-up in large-scale NGS projects, and
the development of robust NGS analysis platforms to enable real-time curation and storage of NGS data,
downstream variant calling, and phylogenetic analysis.
Dr. Allen's laboratory at the Ragon Institute of MGH, MIT and Harvard has been sequencing the highly variable
pathogens HIV, HCV and SIV over the last 15 years during which time he has developed a well-established
physical laboratory to support all stages of the laboratory process. He has also served as the PI of several viral
sequencing cores on NIH/NIAID U01, U19 and P01 project grants during this time, thus providing extensive
experience related to the cost-effective generation, curation, analysis, and deposition of sequence data for viral
pathogens.
项目总结:
美国正处于一场巨大的阿片类药物流行之中。2015年,超过5.2万名美国人死亡
由于药物过量,其中60%以上与处方或非法阿片类药物使用有关。考虑到
注射吸毒仍然是丙型肝炎病毒传播的主要危险因素,与此同时,美国观察到
2010-2013年间,丙型肝炎病毒的发病率显著增加了150%,新的丙型肝炎病毒感染增加了364%
2006年至2012年在阿巴拉契亚四个州感染,最明显的是在农村地区。因此,有
迫切需要在国家一级更具战略性地检测、预防、治疗和控制丙型肝炎病毒。
这个U24应用程序建议开发一个集中的幽灵实验室,以产生高质量、高质量的
CDC幽灵中心和相关临床研究站点的丙型肝炎病毒NGS数据吞吐量,以帮助
确定注射吸毒者之间的丙型肝炎病毒传播联系(PWID);管理收集和
临床研究地点HIV和丙型肝炎病毒感染者的血清样本在RFA下的存储
DA-17-014;并将样本运往疾控中心进行梅毒测试和艾滋病毒和丙型肝炎病毒的系统发育图。
这项提议建立在调查人员在产生大规模桑格和NEXT-
如丙型肝炎病毒和艾滋病毒等高可变病原体的世代测序(NGS)数据,开发和
维护强大的SOP,以减少大型NGS项目中的污染和样品混淆;以及
开发强大的NGS分析平台,以实现NGS数据的实时管理和存储,
下游变种叫声,以及系统发育分析。
艾伦博士在麻省理工学院拉贡研究所和哈佛大学的实验室一直在对高度可变的
病原体艾滋病毒,丙型肝炎病毒和SIV在过去的15年里,在此期间,他发展了一种成熟的
物理实验室为实验室流程的所有阶段提供支持。他还曾担任过几部病毒的PI
在此期间对NIH/NIAID U01、U19和P01项目赠款的核心进行排序,从而提供广泛的
与经济高效地生成、管理、分析和存储病毒序列数据相关的经验
病原体。
项目成果
期刊论文数量(0)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
数据更新时间:{{ journalArticles.updateTime }}
{{
item.title }}
{{ item.translation_title }}
- DOI:
{{ item.doi }} - 发表时间:
{{ item.publish_year }} - 期刊:
- 影响因子:{{ item.factor }}
- 作者:
{{ item.authors }} - 通讯作者:
{{ item.author }}
数据更新时间:{{ journalArticles.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ monograph.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ sciAawards.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ conferencePapers.updateTime }}
{{ item.title }}
- 作者:
{{ item.author }}
数据更新时间:{{ patent.updateTime }}
TODD M ALLEN其他文献
TODD M ALLEN的其他文献
{{
item.title }}
{{ item.translation_title }}
- DOI:
{{ item.doi }} - 发表时间:
{{ item.publish_year }} - 期刊:
- 影响因子:{{ item.factor }}
- 作者:
{{ item.authors }} - 通讯作者:
{{ item.author }}
{{ truncateString('TODD M ALLEN', 18)}}的其他基金
Development of Allogeneic CAR T Cell Therapy for a Functional Cure of HIV Infection
开发同种异体 CAR T 细胞疗法以功能性治愈 HIV 感染
- 批准号:
10480991 - 财政年份:2022
- 资助金额:
$ 63.27万 - 项目类别:
Development of Allogeneic CAR T Cell Therapy for a Functional Cure of HIV Infection
开发同种异体 CAR T 细胞疗法以功能性治愈 HIV 感染
- 批准号:
10581704 - 财政年份:2022
- 资助金额:
$ 63.27万 - 项目类别:
Leveraging Genetic Engineering Towards a Functional Cure of HIV Infection
利用基因工程实现艾滋病毒感染的功能性治愈
- 批准号:
8897540 - 财政年份:2015
- 资助金额:
$ 63.27万 - 项目类别:
Optimizing Human B and T Cell Vaccines Against HIV Using Humanized BLT Mice
使用人源化 BLT 小鼠优化针对 HIV 的人类 B 和 T 细胞疫苗
- 批准号:
8994707 - 财政年份:2013
- 资助金额:
$ 63.27万 - 项目类别:
Optimizing CD8+ T Cell Vaccine Responses Against HIV
优化 CD8 T 细胞疫苗对 HIV 的反应
- 批准号:
8492547 - 财政年份:2013
- 资助金额:
$ 63.27万 - 项目类别:
Optimizing Human B and T Cell Vaccines Against HIV Using Humanized BLT Mice
使用人源化 BLT 小鼠优化针对 HIV 的人类 B 和 T 细胞疫苗
- 批准号:
8487593 - 财政年份:2013
- 资助金额:
$ 63.27万 - 项目类别:
Optimizing Human B and T Cell Vaccines Against HIV Using Humanized BLT Mice
使用人源化 BLT 小鼠优化针对 HIV 的人类 B 和 T 细胞疫苗
- 批准号:
8788494 - 财政年份:2013
- 资助金额:
$ 63.27万 - 项目类别:
相似海外基金
RII Track-4:NSF: From the Ground Up to the Air Above Coastal Dunes: How Groundwater and Evaporation Affect the Mechanism of Wind Erosion
RII Track-4:NSF:从地面到沿海沙丘上方的空气:地下水和蒸发如何影响风蚀机制
- 批准号:
2327346 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Standard Grant
BRC-BIO: Establishing Astrangia poculata as a study system to understand how multi-partner symbiotic interactions affect pathogen response in cnidarians
BRC-BIO:建立 Astrangia poculata 作为研究系统,以了解多伙伴共生相互作用如何影响刺胞动物的病原体反应
- 批准号:
2312555 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Standard Grant
How Does Particle Material Properties Insoluble and Partially Soluble Affect Sensory Perception Of Fat based Products
不溶性和部分可溶的颗粒材料特性如何影响脂肪基产品的感官知觉
- 批准号:
BB/Z514391/1 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Training Grant
Graduating in Austerity: Do Welfare Cuts Affect the Career Path of University Students?
紧缩毕业:福利削减会影响大学生的职业道路吗?
- 批准号:
ES/Z502595/1 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Fellowship
Insecure lives and the policy disconnect: How multiple insecurities affect Levelling Up and what joined-up policy can do to help
不安全的生活和政策脱节:多种不安全因素如何影响升级以及联合政策可以提供哪些帮助
- 批准号:
ES/Z000149/1 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Research Grant
感性個人差指標 Affect-X の構築とビスポークAIサービスの基盤確立
建立个人敏感度指数 Affect-X 并为定制人工智能服务奠定基础
- 批准号:
23K24936 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Grant-in-Aid for Scientific Research (B)
How does metal binding affect the function of proteins targeted by a devastating pathogen of cereal crops?
金属结合如何影响谷类作物毁灭性病原体靶向的蛋白质的功能?
- 批准号:
2901648 - 财政年份:2024
- 资助金额:
$ 63.27万 - 项目类别:
Studentship
ERI: Developing a Trust-supporting Design Framework with Affect for Human-AI Collaboration
ERI:开发一个支持信任的设计框架,影响人类与人工智能的协作
- 批准号:
2301846 - 财政年份:2023
- 资助金额:
$ 63.27万 - 项目类别:
Standard Grant
Investigating how double-negative T cells affect anti-leukemic and GvHD-inducing activities of conventional T cells
研究双阴性 T 细胞如何影响传统 T 细胞的抗白血病和 GvHD 诱导活性
- 批准号:
488039 - 财政年份:2023
- 资助金额:
$ 63.27万 - 项目类别:
Operating Grants
How motor impairments due to neurodegenerative diseases affect masticatory movements
神经退行性疾病引起的运动障碍如何影响咀嚼运动
- 批准号:
23K16076 - 财政年份:2023
- 资助金额:
$ 63.27万 - 项目类别:
Grant-in-Aid for Early-Career Scientists