Genomic Analysis

Decoding crop DNA to engineer climate-resilient seeds. Leveraging Exascale computing to solve the global food security challenges of 2026.

Leading Research Institutions

IRRI

International Rice Research Institute - Leading the 3,000 Rice Genomes Project.

IPK Gatersleben

Leibniz Institute of Plant Genetics and Crop Plant Research - Global Barley Pangenome.

CIMMYT

Maize & Wheat Improvement Center - Accelerating heat-tolerant wheat varieties.

Salk Institute

Harnessing Plants Initiative - CO2 sequestration through optimized plant roots.

Scientific Foundation

Plant genomes, such as wheat, are up to five times larger than the human genome. Our HPC-driven analysis focuses on the transition from static sequencing to functional genomic simulation.

  • Genome Assembly: Reconstructing billions of DNA fragments into complete sequences using De Bruijn graphs.
  • Trait Mapping: Identifying genetic markers for heat, drought, and saline resistance.
  • Molecular Dynamics: Simulating protein folding under environmental stress "in-silico".
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A single wheat genome (Triticum aestivum) requires over 150GB of raw data for 30x coverage, demanding extreme I/O and RAM throughput.

HPC Infrastructure Requirements

Memory & Compute

  • - High RAM Nodes: 1TB - 4TB per Node
  • - Processors: AMD EPYC 9004 Series
  • - GPU Power: NVIDIA H100 for Basecalling

Storage & IO

  • - Filesystem: Lustre Parallel File System
  • - Throughput: 500GB/s Burst Buffer
  • - Interconnect: 400G InfiniBand NDR

Compute Environment

  • - Scheduler: SLURM Workload Manager
  • - Containers: Apptainer / Singularity
  • - Stack: CUDA 12.x / ROCm 6.0

The Bioinformatics Stack

Category Core Tool Application
Workflow Nextflow Scalable pipeline management across HPC nodes.
Assembly Flye / SPAdes De novo assembly of long/short read sequences.
Alignment BWA-MEM Mapping reads against a 16GB+ reference genome.
Variant Calling GATK Identifying SNPs and InDels for climate traits.
Simulation GROMACS Molecular dynamics of plant-environment interaction.