Bioinformatics IT Specialist for Translational Oncology

Euraxess; Helsinki; Hybride; EUR 38 000 - 44 000; Plein temps

Résumé du poste

The University of Helsinki invites applications for an IT Specialist to support cutting-edge biomedical research in the Färkkilä Lab. You will manage research computing infrastructure, cloud-based storage, and lab-wide IT practices to ensure reliable operations for researchers.

We seek a candidate with strong Python/Linux skills, experience in HPC or cloud environments, and a track record in scientific IT support.

Qualifications

• Master's degree in a relevant field, such as bioinformatics, computer science, software engineering, or a related discipline.
• At least three years of relevant professional experience in scientific IT support, research computing, computational infrastructure management, or related fields, or a PhD in a relevant discipline.
• Proficiency in Python and Linux-based computing environments, including command-line tools and scripting.
• Experience in the administration and maintenance of high-performance computing (HPC) or cloud computing environments.
• Experience with large-scale data storage, file management, and data transfers.
• Familiarity with scientific data processing workflows and computational environments, including software dependencies and package management.
• Strong organizational, logical, and problem-solving abilities, with keen attention to detail and the ability to work independently.
• Excellent communication and documentation skills, including the ability to provide technical guidance to researchers with varying levels of computational expertise.
• Previous experience working in an academic research environment or supporting bioinformaticians and biomedical researchers.
• Experience with CSC computing resources, particularly Roihu, LUMI, and cPouta.
• Familiarity with bioinformatics workflow management tools such as Nextflow or Snakemake.
• Experience with containerization technologies such as Docker, Apptainer/Singularity, or Kubernetes.
• Experience handling and processing large biological datasets, particularly imaging, spatial transcriptomics, or other omics data.
• Experience in managing shared software environments and dependencies on HPC systems.
• Familiarity with database management, especially PHP and MySQL databases for biological data.
• Experience with website content management and maintenance.

Responsabilités

• Computing Infrastructure Management: Administration and maintenance of CSC computing resources (Roihu, LUMI, cPouta), including resource allocation, shared computational environments, and user support.
• Data Storage and Management: Monitoring cloud storage systems, facilitating large-scale data transfers, and maintaining standardized data management and documentation practices.
• Bioinformatics Operations: Execution of established data processing pipelines from new research data, including immunofluorescence image processing and spatial transcriptomics workflows.
• IT Support and Coordination: Technical support for researchers for cloud computing clusters, maintaining IT guidelines, and coordination and development of lab-wide IT infrastructure practices.
• Website Administration: Maintaining and updating the research group's website, including personnel, publications, and research activities.

Connaissances

Python

Linux CLI

HPC / Cloud

Containerization

Data storage

Bioinformatics workflows

Nextflow/Snakemake

Docker / Kubernetes

PHP & MySQL

Documentation

Academic environment

Communication skills

Formation

Master's degree

PhD accepted

Outils

Roihu

LUMI

cPouta

Nextflow

Snakemake

Docker

Kubernetes

Apptainer/Singularity

MySQL

PHP

Description du poste

The University of Helsinki invites applications for an IT Specialist to support cutting-edge biomedical research in the Färkkilä Lab. You will manage research computing infrastructure, cloud-based storage, and lab-wide IT practices to ensure reliable operations for researchers.

We seek a candidate with strong Python/Linux skills, experience in HPC or cloud environments, and a track record in scientific IT support.