Resource Core D - Bioinformatics and Statistical Analysis Core

资源核心 D - 生物信息学和统计分析核心

• 批准号: 10463725
• 负责人: Ernesto Guccione
• 金额: $ 21.64万
• 依托单位: ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI
• 依托单位国家: 美国
• 财政年份: 2021
• 资助国家: 美国
• 起止时间: 2021-09-01 至 2026-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10463725
• 关键词: ATAC-seq; Address; Antisense Oligonucleotides; Bioinformatics; Biological; Biology; Biometry; ChIP-seq; Chromatin; Collaborations; Communication; Communities; Complex; Consultations; Data; Data Analyses; Data Reporting; Data Set; Databases; Development; Disease; Educational workshop; Ensure; Evolution; Experimental Designs; Fees; Funding; Future; Genes; Genomics; Goals; Hi-C; Homeostasis; Human Resources; Image; Individual; Internet; Leadership; Methodology; Multiomic Data; Multiplexed Ion Beam Imaging; Output; Proteomics; RNA Splicing; Randomized; Reporting; Reproducibility; Research; Research Design; Research Methodology; Research Personnel; Research Project Grants; Resources; Sample Size; Scholarship; Services; Skin; Slide; Stains; Standardization; Statistical Data Interpretation; Statistical Models; Technology; Training; Training and Education; Visualization; Work; base; bioinformatics tool; biological systems; computerized tools; computing resources; cost; data integration; data management; data sharing; data tools; data visualization; design; exome sequencing; experience; experimental study; improved; innovation; large datasets; meetings; novel; prevent; process repeatability; ranpirnase; single-cell RNA sequencing; skin organogenesis; statistics; tool; transcriptomics; whole genome

SUMMARY – RESOURCE CORE D Recent advancements in the field of genomics, transcriptomics, proteomics and imaging have greatly enhanced our understanding of skin development, homeostasis and disease. Nonetheless access to state-of- the-art statistical and bioinformatic tools for the analysis and integration of these large datasets has a high barrier in terms of costs and expertise limiting reproducibility and innovation. The main objective of Core D, `Data Analysis and Integration' is to promote research in skin biology and disease by providing a central hub for statistical design, bioinformatic analysis and training across all projects. This will ensure a standardized and reproducible process to generate meaningful biological conclusions. Core D will provide a complete solution for experimental and statistical consultation, genomics, transcriptomics and immunohistochemical data analysis. It will provide data integration across all platforms and projects, data management, interpretation and reporting, through Skin-GLOW (Skin-Gene Level Omic Web Tool), a state-of-the-art uniformed and integrated database for data visualization and sharing. This interface will improve the reproducibility and validity of research findings and boost skin related discoveries. Core personnel will be embedded in skin research labs where they will become familiarized with skin as a biological system and the questions being asked; this will help ensure that they can most effectively advise lab personnel appropriate analyses of their data; conversely lab personnel will become more familiar with analysis tools. Core D leadership collectively have >30 years of experience in biostatistics and chromatin biology bioinformatic support. This strong team will work closely together to provide first-rate core service to SBDRC researchers. Core D will provide the following services to core users: (1) Coordinated and comprehensive management of computational resources and biostatistics and bioinformatics training at reduced cost to SBDRC users; (2) Statistical design and analysis services; (3) Standardized, state- of-the art bioinformatics expertise for genomics and transcriptomics-based approaches; (4) Standardized, state-of-the art bioinformatics expertise for spatial approaches, and (5) Develop pipelines and innovative tools for data integration across all platforms (i.e. Skin-GLOW). The core is highly innovative through its cutting-edge integrated bioinformatics analysis (e.g. spatial transcriptomics, sc-ATAC-seq and Iso-seq), which will enable SBDRC researchers to fully explore complex datasets, formulate novel hypotheses, as well as access to unique tools (i.e. Splice Switching Antisense Oligos -ASOs) for mechanistic studies and potential future therapies for skin related diseases. Significance: Collectively, Core D is constituted to provide state-of-the-art statistical and bioinformatics expertise, collaboration and training to all SBDRC investigators, while integrating multi-omic data in an interactive web-tool, to advance research in skin biology and disease. This in turn will facilitate discussion between investigators to increase the relevance, value and impact of their studies, and the development of additional bioinformatics tools tailored to the specific needs of the skin community.

摘要-资源核心D 基因组学、转录组学、蛋白质组学和成像领域的最新进展极大地促进了 增强了我们对皮肤发育、体内平衡和疾病的理解。然而，进入国家- 用于分析和整合这些大型数据集的最先进的统计和生物信息学工具具有很高的 成本和专业知识方面的障碍限制了可重复性和创新。核心D的主要目标， “数据分析和整合”是通过提供一个中心枢纽来促进皮肤生物学和疾病的研究。 用于所有项目的统计设计、生物信息学分析和培训。这将确保标准化和 可重现的过程，以产生有意义的生物学结论。Core D将提供完整的解决方案， 实验和统计咨询、基因组学、转录组学和免疫组化数据分析。它 将提供跨所有平台和项目的数据集成、数据管理、解释和报告， 通过Skin-GLOW（皮肤基因水平Omic Web工具），一个最先进的统一和集成数据库 用于数据可视化和共享。该接口将提高研究结果的可重复性和有效性 并促进皮肤相关的发现。核心人员将被嵌入皮肤研究实验室，在那里他们将 熟悉皮肤作为一个生物系统和被问到的问题;这将有助于确保 他们可以最有效地建议实验室人员对他们的数据进行适当的分析;相反，实验室人员将 更熟悉分析工具。核心D领导层在以下领域拥有超过30年的经验： 生物统计学和染色质生物学生物信息学支持。这个强大的团队将密切合作， 一流的核心服务SBDRC研究人员。Core D将为核心用户提供以下服务：（1） 协调和全面管理计算资源和生物统计学及生物信息学 以较低的费用向SBDRC用户提供培训;（2）统计设计和分析服务;（3）标准化、国家- 基因组学和转录组学方法的最新生物信息学专业知识;（4）标准化， 空间方法的最先进的生物信息学专业知识，以及（5）开发管道和创新工具 用于跨所有平台的数据集成（即Skin-GLOW）。核心是通过其尖端的高度创新 整合的生物信息学分析（如空间转录组学、sc-ATAC-seq和Iso-seq），这将使 SBDRC研究人员充分探索复杂的数据集，制定新的假设，以及访问 独特的工具（即剪接转换反义寡核苷酸-ASO），用于机制研究和潜在的未来 治疗皮肤相关疾病。意义：总体而言，核心D的构成是为了提供最先进的 统计和生物信息学专业知识，合作和培训所有SBDRC研究人员，同时整合 多组学数据在一个互动的网络工具，以推进皮肤生物学和疾病的研究。这反过来将 促进研究者之间的讨论，以增加其研究的相关性、价值和影响， 开发更多的生物信息学工具，以适应皮肤社区的具体需求。