Division of Computational Bioscience Scientific Computing Facility

计算生物科学部科学计算设施

• 批准号: 9146136
• 负责人: Anthony Fletcher
• 金额: $ 33.77万
• 依托单位: CENTER FOR INFORMATION TECHNOLOGY
• 依托单位国家: 美国
• 资助国家: 美国
• 起止时间: 至
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/9146136
• 关键词: Accounting; Accreditation; Architecture; Archives; Bioinformatics; Biological; Biological Assay; Cataloging; Catalogs; Certification; Collaborations; Communities; Complex; Computer Systems; Computer software; Computers; Confidentiality; Data; Data Analyses; Data Storage and Retrieval; Databases; Diagnosis; Disease; Environment; Equipment; Exons; Funding; Gap Junctions; Gene Expression; Gene Expression Profile; Goals; Grant; Health; High Performance Computing; Human; Human Genetics; Imagery; Information Technology; Intramural Research Program; Joints; Laboratories; Life Cycle Stages; Linux; Maintenance; Molecular Bank; Molecular Models; Molecular Structure; National Heart, Lung, and Blood Institute; National Human Genome Research Institute; National Institute of Allergy and Infectious Disease; National Institute of Dental and Craniofacial Research; National Institute of Diabetes and Digestive and Kidney Diseases; National Institute of General Medical Sciences; Policies; Process; Production; Proteome; Rare Diseases; Reporting; Research Infrastructure; Research Personnel; Resources; Running; Salivary; Salivary Proteins; Scanning; Science; Security; Services; Single Nucleotide Polymorphism; Software Tools; Solutions; Speed; System; Testing; Time; United States National Institutes of Health; Work; base; cluster computing; computerized data processing; data sharing; design; genetic association; member; molecular modeling; next generation sequencing; operation; programs; response; scientific computing; success; tool; transcriptome sequencing; wiki

The Division of Computational Bioscience (DCB) Scientific Computing Facility (SCF) collaborates with DCB staff and their NIH investigators to build and provide a diverse but robust scientific computing system. This system provides the infrastructure needed by the collaborations at the same time as complying with all security, confidentiality and integrity requirements, especially those concerned with storing PII and other sensitive data. With common smooth software and hardware refreshes, collaborators are allowed to work uninterrupted. Expert staff are able to provide centralised support and advice to enable the best use of resources in support of the Division's Intramural Research Program. The Facility comprises of low availability equipment rooms containing a wide range of hardware for scientific computing with approximately 200 continuously running servers, which provide compute nodes and data storage. There are separate racks for machines used for storing and processing sensitive information, such as personal health information and grant information, with appropriate extra layers of protection. DCB also rents space from the Division of Computer System Services (DCSS) of the Center for Information Technology (CIT) for high availability production systems, such as those supporting the Salivary Proteome Wiki. A common and federated environment across all computational systems, enables DCB staff to quickly build the data analysis tools they need throughout the lifetime of a collaboration. Common file systems, unified authentication, system management, and other system coordinating features are fully integrated into an infrastructure containing the variety of supporting software. Commodity hardware, free software and commercial software are integrated to provide efficient and sustainable solutions. Staff perform the many common security, maintenance, backup and reporting tasks that are required for the day to day operation of scientific computational systems on behalf of DCB. In particular, managing the Federally mandated Certification and Accreditation process on DCB's Computational Facility that would otherwise be a significant burden to DCB developers and investigators as well as their collaborators. When an collaborative project is concluded, staff work with the ICs to relocate systems to space within the ICs or the CIT Data Center as appropriate. Facility staff are also refining customised versions of various Linux distributions to comply with NIH computer configuration policies, including the policies on user account life-cycle, user account passwords, and Incident Response Team (IRT) scanning. This "Lab Linux" configuration leverages the existing IT infrastructure at NIH, thereby making it easy for NIH laboratory staff to use and maintain the system. Many prominent investigators panels and science leaders have reported a lack of skilled professional computational experts to help with running similar resources across NIH. Laboratories tend to rely on the incidental expertise found among their, often temporary, staff. With the large amounts of data processing that is required for projects at NIH, the Facility provides the necessary expertise to DCB. Moreover, DCB is receiving an increasing number of requests from across the ICs to jump-start and support laboratory-based scientific computing infrastructures directly because of the success of DCB's own Facility. In 2015, supported collaborations include: . The Human Salivary Protein Catalog, with NIDCR, supporting the Salivary Proteome community. . Molecular Libraries Program (MLP), part of the NIH Common Fund, to develop the Common Assay Reporting System (CARS). . Molecular Structure Determination (NIDDK, NIDCR, NCI, NHLBI). . The Center for Molecular Modeling's MMIGNET programme supporting NIH as a whole. . Microarray Database System (mAdb) with NCI and NIAID. . The Genetic Association Database archive of human genetic association studies of complex diseases and disorders, in collaboration with NIA. . Undiagnosed Diseases Program Portal (ORDR, NHGRI, CC) enabling experts from across the world help NIH to diagnose rare diseases. . Portfolio analysis and portfolio visualization resources supporting many groups throughout NIH, including OD, CSR and NIGMS. . A collaborative effort with NHLBI to design and execute a program which computes billions of SNP-gene expression association tests, in an effort to find expression - single nucleotide polymorphisms, eSNPs. Efforts so far are producing a 20-fold speed up over previous efforts. . A joint project, with NCI and a NCI-funded consortium, implementing an analysis pipeline and providing the necessary bioinformatics tools for transcriptome analysis and biological interpretation of RNA-seq/Exon capture data from next generation sequencing. . A joint project with NHLBI and other ICs to provide a nexus of computational system administration support and set policies and standards for NIH.

计算生物科学部（DCB）科学计算设施（SCF）与DCB工作人员及其NIH研究人员合作，建立并提供多样化但强大的科学计算系统。该系统提供了协作所需的基础设施，同时符合所有安全、机密性和完整性要求，特别是与存储PII和其他敏感数据有关的要求。通过常见的平滑软件和硬件刷新，协作者可以不间断地工作。专家人员能够提供集中的支持和建议，以最大限度地利用资源，支持该司的校内研究计划。