Mays Cancer Center at UT Health SA

UT Health SA 梅斯癌症中心

基本信息

批准号：
10460437
负责人：
Zhao Lai
金额：
$ 8.48万
依托单位：
UNIVERSITY OF TEXAS HLTH SCIENCE CENTER
依托单位国家：
美国
项目类别：
财政年份：
1997
资助国家：
美国
起止时间：
1997-08-01 至 2025-07-31
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10460437
关键词：
Advisory Committees Applications Grants Area Base Sequence Bioinformatics Bioinformatics Shared Resource Biological Assay Biometry CRISPR screen Cancer Center Cancer Center Support Grant Catchment Area Cells ChIP-seq Child Chromosome Structures Chromosomes Collaborations Complement Consultations Copy Number Polymorphism Custom DNA Damage DNA copy number DNA sequencing Data Diagnosis Doctor of Philosophy Educational workshop Environment Equipment Experimental Designs Faculty Funding Funding Agency Future Gene Expression Gene Expression Regulation Generations Genomics Goals Group Meetings Health Journals Knowledge Libraries Link Malignant Neoplasms Manuscripts Metagenomics MicroRNAs Mission Mutation Nature Pathway interactions Peer Review Phenotype Population Preparation Price Prognosis Protocols documentation Publications Reagent Research Research Institute Research Personnel Resource Sharing Sampling Screening for cancer Services Small RNA Statistical Data Interpretation Strategic Planning Students Technology Training Tumor Subtype Tumor Suppressor Proteins Variant Work anticancer research cancer cell cancer heterogeneity cancer initiation chromatin modification cost effective data pipeline design direct application experimental study genomic data improved liquid biopsy member next generation sequencing novel programs single cell analysis square foot tool transcriptome sequencing tumor heterogeneity

项目摘要

Project Summary—Next Generation Sequencing Shared Resource The mission of the Next-Generation Sequencing Shared Resource (NGSSR) is to provide Mays Cancer Center (MCC) members with state-of-the-art next generation sequencing technology for detecting and exploring alterations in nucleotide sequence, DNA copy number variation, gene expression differences, chromosome structure variation, chromatin modification and all interactions which are linked to the complexity of phenotypes seen in cancers. The NGSSR, directed by Zhao Lai, Ph.D., has been an MCC Shared Resource since 2012. It is located in 1,000 sq. ft. of space in the Greehey Children’s Cancer Research Institute (GCCRI) building, adjacent to the MCC. Dr. Lai is assisted by technical director Ms. Dawn Garcia. The NGSSR conducts sequence applications for MCC users across all 3 scientific programs. Services include various types of library construction, DNA-seq, RNA-seq, ChIP-seq, small RNA-seq and exomeCap-seq, CRISPR screening, 16S metagenomics, and single cell analysis. In addition, Dr. Lai and the NGSSR team assist users with experimental design and provide educational training to faculty, staff and students. The NGSSR works closely with the Biostatistics and Bioinformatics Shared Resource (BBSR), led by Yidong Chen, Ph.D. (PSP), a bioinformatics expert. The BBSR works with the NGSSR to provide MCC members with computational capabilities that complement the NGSSR’s offerings. The NGSSR is overseen by a Scientific Advisory Committee and the MCC Shared Resource Oversight Committee (SROC). In 2018, the NGSSR was used by 31 peer-reviewed funded MCC members (36% of total usage) and contributed to 12 cancer-related manuscripts in 2018. Since its inception, from 2014 to the middle of 2018, NGSSR has quickly become an essential component in MCC and transformed the genomics research environment for MCC members with a nearly three-fold increase in the number of users and contributions to over 44 cancer-related publications in NEJM, Nature, Cancer Cell, PNAS, and other high-impact peer-reviewed journals. As new tools and reagents are developed (e.g. liquid biopsies) they can be readily implemented in NGS assays. Another exciting area of cancer research is single-cell analysis. The NGSSR will be heavily involved in strategic planning and design of these experiments. The NGSSR has improved efficiency, created a smooth data pipeline incorporating analyses, and acquired new hardware through multiple funding sources to upgrade its equipment. It continues to provide essential cutting-edge, high-quality, and cost-effective services to MCC users across all 3 scientific programs.

项目摘要——下一代测序共享资源下一代测序共享资源 (NGSSR) 的使命是为梅斯癌症中心提供 (MCC) 成员拥有最先进的下一代测序技术用于检测和探索核苷酸序列的改变、DNA拷贝数变异、基因表达差异、染色体结构变异、染色质修饰以及与表型复杂性相关的所有相互作用由赵来博士领导的 NGSSR 自 2012 年以来一直是 MCC 共享资源。它位于 Greehey 儿童癌症研究所 (GCCRI) 大楼 1,000 平方英尺的空间内，邻近 MCC，由 NGSSR 技术总监 Dawn Garcia 女士协助进行。为 MCC 用户提供跨所有 3 个科学项目的序列应用程序，包括各种类型的图书馆。构建、DNA-seq、RNA-seq、ChIP-seq、小 RNA-seq 和 exomeCap-seq、CRISPR 筛选、16S 此外，Lai 博士和 NGSSR 团队还协助用户进行实验。 NGSSR 与 NGSSR 密切合作，为教职员工和学生设计并提供教育培训。生物统计学和生物信息学共享资源 (BBSR)，由生物信息学博士 Yidong Chen 领导。 BBSR 与 NGSSR 合作，为 MCC 成员提供计算能力， NGSSR 的服务由科学咨询委员会和 MCC 进行补充。共享资源监督委员会 (SROC) 2018 年，NGSSR 被 31 个同行评审资助使用。 MCC 成员（占总使用量的 36%），并在 2018 年贡献了 12 篇与癌症相关的手稿。自2014年成立以来，到2018年中，NGSSR已迅速成为中冶集团的重要组成部分，改变了 MCC 成员的基因组学研究环境，研究数量增加了近三倍 NEJM、Nature、Cancer Cell、PNAS 等超过 44 种癌症相关出版物的用户数量和贡献以及其他高影响力的同行评审期刊。随着新工具和试剂的开发（例如液体活检）。它们可以很容易地应用于 NGS 分析中。癌症研究的另一个令人兴奋的领域是单细胞分析。 NGSSR 将大力参与这些实验的战略规划和设计。提高了效率，创建了包含分析的平滑数据管道，并通过以下方式获取了新硬件它继续提供必要的尖端、高质量、为所有 3 个科学项目的 MCC 用户提供具有成本效益的服务。