TICR High Performance Computing

The Colorado Center for Personalized Medicine (CCPM) has partnered with the Research and Shared Services Division (RSS) within the Office of Information Technology (OIT) to build a high performance computing (HPC) system, Rosalind.

 

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Medical_snakeSwift Secure Solution to Support Science!

Swift - Rosalind provides the capacity and the power to quickly process big data driven hypotheses

Secure - Rosalind utilizes resources from OIT to store and backup your data safely, and provides a solution for analyzing highly sensitive data

Solution - Big data queries drive innovations in science and health care

Support - OIT and TICR provide support to facilitate your computational research needs

Science - Choose Rosalind to discover new ways to look at science!

The Translational Informatics and Computational Resource (TICR) is an integral component of the Colorado Center for Personalized Medicine (CCPM).  TICR integrates scientists with primary appointments in CCPM who have expertise in biomedical informatics, computational biology, software engineering, statistical and population genetics, and genetic epidemiology, with biostatisticians and epidemiologists from the School of Public Health, to partner with UC clinician scientists and basic scientists with a common interest in designing disease-specific testing paradigms for the development of a robust personalized medicine program. The team of bioinformaticians, data analysts and programmers who comprise TICR will serve a tripartite function of (i) providing consultation in study design, data analysis and interpretation of data; (ii) development of tools to be implemented in the Molecular Diagnostics Unit for point-of-care information delivery in the clinical setting; and (iii) actively seek added avenues for scientific discovery by engaging, at the grassroots level, the other operational units that comprise CCPM: Health Data Compass, the UC-Biobank, and Molecular Diagnostics.

Background

This in-house, comprehensive, stand-alone biocomputing unit supports a multidisciplinary, robust computing resource to foster omics-based research using high-dimensionality data (e.g. genomics, transcriptomics, microbiomics, proteomics, metabolomics) and development and implementation of computational methods and tools for sequence analysis and systems biology approaches.​

Rosalind Components

32 Linux compute nodes, each with 24 CPU cores and 128 GB of RAM (Compute costs - $0.121 per Core-Hour)

2 Linux high memory node, with 36 CPU cores and 1536 GB of RAM (Compute costs - $0.121 per Core-Hour)

FDR InfiniBand high speed networking for parallel computing and storage interconnect

3.7 PB of usable shared storage (DDN GS14Ke with approx. 650 hard drives) (Storage costs - $0.02 per GB/month)

Red Hat Enterprise Linux 7.3 operating system, SLURM job scheduler

Rosalind Name

Rosalind was named after Rosalind Franklin, a chemist and X-ray crystallographer whose research was central to the discovery of the double-helix structure of DNA.

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Information for new and existing Rosalind users

Rosalind staff

Tzu Phang, PhD       Nick Rafaels, MS   Tonya Brunetti, PhD   Bob Schell             John Finigan

TICR Director        TICR Manager     TICR Analyst            RSS Director        Systems Administrator

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