Bioinformatics Core
生物信息学核心
基本信息
- 批准号:10614011
- 负责人:
- 金额:$ 11.91万
- 依托单位:
- 依托单位国家:美国
- 项目类别:
- 财政年份:2022
- 资助国家:美国
- 起止时间:2022-05-01 至 2027-04-30
- 项目状态:未结题
- 来源:
- 关键词:AccelerationAnatomyBindingBioinformaticsBiologicalBiological AssayCell LineageClinicalCytometryDNADataData SetDevelopmentDrug or chemical Tissue DistributionEnsureEvaluationGenbankGene ExpressionGenetic Sequence DatabasesGenetic TranscriptionHIVImmunologicsImmunophenotypingInflammatoryInterruptionKnowledge DiscoveryLinkMeasuresMethodsMolecularNaturePathogenesisPerformancePlayProceduresProteomicsProvirusesRecrudescencesResearch PersonnelResolutionRoleSamplingSeasonsSequence Read ArchiveTechnologyTimeTissuesTranscriptUnited States National Institutes of HealthValidationViralantiretroviral therapyclinically relevantcomplex datadata managementdata submissiondigitalexperienceexperimental studyhigh dimensionalityin vivoinsightlearning strategymachine learning algorithmmachine learning methodmultidimensional datanano-stringpotential biomarkerpredictive signaturepublic repositoryrelational databaserepositorysingle-cell RNA sequencingtheoriestranscriptomicsviral RNAviral reboundvirus genetics
项目摘要
PROJECT SUMMARY/ABSTRACT (Bioinformatics Core)
The development, evaluation and implementation of HIV cure strategies will depend critically on our
understanding of the “rebound-competent” HIV reservoir, and our capacity to determine when this reservoir is
reduced to the point that viral recrudescence is unlikely in the near-term, justifying cessation of antiretroviral
therapy (ART). Increasing evidence suggests that the active HIV reservoir during ART likely contributes to
viral recrudescence following ART interruption, and the nature of HIV expression varies dramatically in vivo
with respect to time, anatomic compartment, and target cell lineage. In this P01, several cutting-edge, high-
dimensional technologies will be applied to a broad range of clinical samples to characterize diverse, active
HIV reservoir subsets and their immunological and inflammatory impact in unprecedented detail. These
technologies include: HIV transcription profiling, the intact proviral DNA assay (IPDA), intact viral RNA assay
(IVRA), single provirus and HIV transcript sequencing, single-cell RNA-seq (scRNA-seq), Cytometry by time of
flight (CyTOF), and nanoString GeoMX digital spatial profiling (DSP) generating high-resolution transcriptomic
and proteomic data from tissues.
Our massive and complex datasets will require extensive and sophisticated data management, integration, and
bioinformatic and biostatical analyses to ensure that clinically relevant biological insights are distilled from our
experiments. The Bioinformatics Core, staffed by seasoned investigators with specific expertise in the analysis
of high-dimensional data to study HIV pathogenesis and persistence, will perform these critical functions within
our P01 project.
We will pursue three Specific Aims in the Bioinformatics Core: In Aim 1, we will compile, curate, and
disseminate data generated by all three P01 projects, building a searchable, relational database for our
investigative team and submitting data to relevant public repositories to maximize data accessibility. In Aim 2,
we will apply ensemble machine learning methods to high-dimensional data generated in all three P01 projects
to identify molecular and immunologic signatures of diverse active HIV reservoir subsets. In Aim 3, we will
apply advanced knowledge discovery methods to data generated from analytical treatment interruption (ATI)
samples (Project #3) to reveal predictors and HIV reservoir signatures of viral rebound following ART
cessation.
The Bioinformatics Core will play a central role in ensuring successful implementation of our P01 objectives to
advance the HIV cure agenda.
项目摘要/摘要(生物信息学核心)
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)
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Satish Kumar Pillai其他文献
Satish Kumar Pillai的其他文献
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{{ truncateString('Satish Kumar Pillai', 18)}}的其他基金
Innate Sensing of Cell-Free DNA and the Interferon-Mediated Control of HIV In Vivo
无细胞 DNA 的先天感知和体内干扰素介导的 HIV 控制
- 批准号:
10620085 - 财政年份:2023
- 资助金额:
$ 11.91万 - 项目类别:
Innate Sensing of Cell-Free DNA and the Interferon-Mediated Control of HIV In Vivo
无细胞 DNA 的先天感知和体内干扰素介导的 HIV 控制
- 批准号:
10661305 - 财政年份:2022
- 资助金额:
$ 11.91万 - 项目类别:
Project 3: Identifying plasma biomarkers predicting time to HIV rebound after treatment interruption
项目 3:识别血浆生物标志物,预测治疗中断后 HIV 反弹的时间
- 批准号:
10223997 - 财政年份:2017
- 资助金额:
$ 11.91万 - 项目类别:
Effects of Cell-Intrinsic Immunity on Establishment and Reversal of HIV Latency
细胞内在免疫对 HIV 潜伏期建立和逆转的影响
- 批准号:
9354580 - 财政年份:2015
- 资助金额:
$ 11.91万 - 项目类别:
Effects of Cell-Intrinsic Immunity on Establishment and Reversal of HIV Latency
细胞内在免疫对 HIV 潜伏期建立和逆转的影响
- 批准号:
9134183 - 财政年份:2015
- 资助金额:
$ 11.91万 - 项目类别:
High throughput measurement of envelope gene diversity for an HIV incidence assay
用于 HIV 发病率测定的包膜基因多样性的高通量测量
- 批准号:
8720184 - 财政年份:2013
- 资助金额:
$ 11.91万 - 项目类别:
High throughput measurement of envelope gene diversity for an HIV incidence assay
用于 HIV 发病率测定的包膜基因多样性的高通量测量
- 批准号:
8466485 - 财政年份:2013
- 资助金额:
$ 11.91万 - 项目类别:
High throughput measurement of envelope gene diversity for an HIV incidence assay
用于 HIV 发病率测定的包膜基因多样性的高通量测量
- 批准号:
8717846 - 财政年份:2013
- 资助金额:
$ 11.91万 - 项目类别:
Characterization of the HIV-1 Latent Reservoir in CCR5-Delta 32 Heterozygotes
CCR5-Delta 32 杂合子中 HIV-1 潜伏库的表征
- 批准号:
8603539 - 财政年份:2013
- 资助金额:
$ 11.91万 - 项目类别:
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