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ELIXIR-IT HPC@CINECA: high performance computing resources for the bioinformatics community.

Tiziana Castrignanò1, Silvia Gioiosa2,3, Tiziano Flati2,3

  • 1Department of Ecological and Biological Sciences (DEB), University of Tuscia, Viterbo, Italy. tiziana.castrignano@unitus.it.

BMC Bioinformatics
|August 26, 2020
PubMed

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Summary
This summary is machine-generated.

The ELIXIR-IT HPC@CINECA program provides Italian bioinformaticians with access to high-performance computing (HPC) resources. This initiative accelerates research by enabling the analysis of large biological datasets and improving computational efficiency.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Next Generation Sequencing (NGS) has increased data generation, driving the need for advanced computational resources in biology.
  • Bioinformatics is entering the Big Data era, necessitating the use of High Performance Computing (HPC) architectures.
  • ELIXIR-IT, in collaboration with CINECA, offers HPC resources to address these computational demands for bioinformaticians.

Purpose of the Study:

  • To describe the HPC resources provisioning pilot program established by ELIXIR-IT and CINECA.
  • To provide streamlined access to HPC for bioinformatics research in Italy.
  • To support the analysis of large-scale biological data and accelerate computational turnaround times.

Main Methods:

  • The ELIXIR-IT HPC@CINECA program offers access via web front-ends to dedicated workflows and direct command-line interfaces.
Keywords:
BioinformaticsCompute serviceHPCNGS data analysisSoftware environment

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  • Resources include access to CINECA's supercomputing systems, tailored for bioinformatics data analysis.
  • The program provides an updated environment with the latest reference datasets and bioinformatics tools.

    • Main Results:

    • Since April 2016, 63 research projects have accessed the HPC@CINECA program.
    • Approximately 8 million CPU/hours and significant data storage (100 TB permanent, 300 TB temporary) have been allocated.
    • The program facilitates production-scale bioinformatics analysis for the biomedical research community.

    Conclusions:

    • The program has significantly impacted the Italian bioinformatics community by providing access to top-tier supercomputing facilities.
    • Researchers have reduced computational times, enabling complex data analysis and novel research approaches.
    • Participants enhanced their HPC skills, improving their competitiveness for larger EU research programs like PRACE, with five successful use cases published.