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Core B: Bioinformatics and Biostatistics Core

核心 B：生物信息学和生物统计学核心

基本信息

批准号：
10270677
负责人：
Jinghui Zhang
金额：
$ 23.18万
依托单位：
ST. JUDE CHILDREN'S RESEARCH HOSPITAL
依托单位国家：
美国
项目类别：
财政年份：
2003
资助国家：
美国
起止时间：
2003-04-01 至 2026-08-31
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10270677
关键词：
ATAC-seq Address Animals Automobile Driving Bioinformatics Biological Assay Biological Models Biological Process Biometry Biostatistics Core Brain Cells ChIP-seq Childhood Childhood Brain Neoplasm Childhood Cancer Genome Project Chromatin Cloud Computing Computational Biology Computer Analysis Coupled Data Data Analyses Data Set Databases Dependence Deposition Developmental Process Diffuse intrinsic pontine glioma Discipline Disease Encyclopedia of DNA Elements Ensure Epigenetic Process Experimental Designs Gap Junctions Genomics Glioma Goals High Performance Computing Human Infrastructure Methods Methylation Molecular Molecular Profiling Mutation Neoplasms Oncogenic Pathogenesis Pathway Analysis Pathway interactions Phenotype Play Process Program Research Project Grants Proteome Proteomics Publishing Quality Control Regulation Reproducibility Research Design Research Project Grants Role Saint Jude Children&apos s Research Hospital Sample Size Sampling Scientist Secure Statistical Data Interpretation Subgroup The Cancer Genome Atlas Therapeutic Intervention Transposase Universities Visualization software Washington Work analytical tool bisulfite sequencing cloud platform computational pipelines data integration data management data quality data resource data sharing data to knowledge design epigenome epigenomics exome sequencing experimental analysis experimental study genetic signature genome analysis genomic data high dimensionality hindbrain medulloblastoma member mouse model multimodality neuropathology novel phenotypic data programs ribosome profiling single cell analysis single-cell RNA sequencing therapeutic target transcriptome transcriptome sequencing transcriptomics treatment response tumor tumorigenesis whole genome

项目摘要

Summary/Abstract The Bioinformatics and Biostatistics Core is responsible for providing high-quality genomic and epigenomic data analysis for the four research projects outlined in this Program, for developing infrastructure for cross-project data sharing, and for identifying important biological processes involved in the initiation and progression of glioma and medulloblastoma by integrating cross-project genomic data sets, and for comparing data from the Program Project Grant with the extensive data resource generated from by other large-scale genomic projects including St. Jude/Washington University Pediatric Cancer Genome Project (PCGP), The Encyclopedia of DNA Elements (ENCODE) and The Cancer Genome Atlas Project (TCGA). Core B has access to state of art computing infrastructure at the St. Jude High Performance Computing Facility (HPCF) as well as analytical tools, computational pipeline and data management infrastructure established at the Department of Computational Biology. Core B will be responsible for analyzing data generated from the Program Project including exome sequencing, RNA-Seq, Ribo-seq, whole-genome bisulfite sequencing (WGBS), ChIP-Seq, Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq) and methylation array. We will apply the most advanced public methods as well as novel methods developed by the Department of Computational Biology or the Biostatistics Department. We will also provide biostatistical expertise for all projects.

总结/摘要生物信息学和生物统计学核心负责提供高质量的基因组和表观基因组数据分析本计划中概述的四个研究项目，为跨项目开发基础设施数据共享，并确定参与神经胶质瘤的启动和进展的重要生物学过程和髓母细胞瘤通过整合跨项目基因组数据集，并比较数据从该计划利用其他大型基因组项目产生的广泛数据资源，包括圣裘德/华盛顿大学儿科癌症基因组计划（PCGP），DNA元素百科全书（ENCODE）和癌症基因组图谱计划（TCGA）。核心B可以访问最先进的计算圣犹达高性能计算设施（HPCF）的基础设施以及分析工具，在计算部建立的计算管道和数据管理基础设施生物学核心B将负责分析项目产生的数据，包括外显子组测序，RNA-Seq，Ribo-seq，全基因组亚硫酸氢盐测序（WGBS），ChIP-Seq，使用测序（ATAC-Seq）和甲基化阵列的转座酶可扩增染色质。我们将应用最先进的公共方法以及计算生物学系开发的新方法或者生物统计部门我们还将为所有项目提供生物统计专业知识。