Core 2: Computational Core

核心2：计算核心

基本信息

批准号：
10652290
负责人：
Aristotelis Tsirigos
金额：
$ 22.18万
依托单位：
NEW YORK UNIVERSITY SCHOOL OF MEDICINE
依托单位国家：
美国
项目类别：
财政年份：
2019
资助国家：
美国
起止时间：
2019-06-12 至 2024-05-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10652290
关键词：
ATAC-seq Architecture Bioinformatics ChIP-seq Chromatin Chromatin Conformation Capture and Sequencing Collaborations Communities Computer Analysis Data Data Analyses Data Collection Data Set Databases Development Ensure Environment Epigenetic Process Genetic Genome Genomics Goals Hi-C High Performance Computing Infrastructure Laboratories Letters Maintenance Malignant Neoplasms Methods Mission Molecular Molecular Conformation Phenotype Principal Investigator Process Publishing Reporting Reproducibility Research Role Services Standardization Techniques Technology Visualization chromosome conformation capture computational pipelines computational platform cost data exchange data integration data management data quality data sharing design epigenomics genomic data high throughput analysis medical schools member single-cell RNA sequencing tool transcriptome sequencing transcriptomics tumor initiation tumor progression web interface web portal

项目摘要

SUMMARY The overarching goal of the Computational Core is to provide robust and reproducible analysis of high- throughput genomic (WES), epigenomic (ChIP-seq, ATAC-seq, WGBS and RRBS), chromatin conformation (Hi-C and 4C) and transcriptomic (RNA-seq and single-cell RNA-seq) data using a variety of established computational workflows, methods and tools. All genomics data will be uniformly processed by HiC-bench, our recently published computational platform. The Computational Core will provide start-to-finish standardization of the analysis of sequencing datasets, rigorous data quality assessment, integration and visualization, as well as statistical expertise. The results of the bioinformatics analyses conducted in the Core will be utilized by all three Projects, using the sharable workflows of our computational platform. Finally, the bioinformatics staff will setup a web interface for the data and analyses, accessible to all members of the proposed study. This web interface will also facilitate data sharing with the broader scientific community and the public when our studies are published.

概括计算核心的总体目标是提供对高级的可重复分析吞吐量基因组（WES），表观基因组（CHIP-SEQ，ATAC-SEQ，WGB和RRB），染色质构象（HI-C和4C）和转录组（RNA-Seq和单细胞RNA-Seq）数据使用多种已建立的数据计算工作流，方法和工具。所有基因组学数据将由我们的HIC Bench统一处理最近发布的计算平台。计算核心将提供开始到开始的标准化测序数据集的分析，严格的数据质量评估，集成和可视化的分析作为统计专业知识。所有人都将利用以核心进行的生物信息学分析的结果使用我们的计算平台的可共享工作流程的三个项目。最后，生物信息学人员将为数据和分析设置Web界面，并访问拟议研究的所有成员。这个网络当我们的研究时，界面还将促进与更广泛的科学界和公众的数据共享已出版。