09/2025 to Present
Postdoctoral Researcher
Forschungszentrum Jülich GmbH, Jülich, Germany
- AI and agentic frameworks for biocuration of metabolomics and lipidomics literature: named entity recognition, ontologies, controlled vocabularies, and knowledge graphs.
- SeqSidecar, a columnar query engine for nucleotide and protein sequencing reads, supporting filtering, search, deduplication, and remote index-based querying of FASTA and FASTQ at scale.
- An OCI container registry that mirrors the full BioContainers catalogue of over 100,000 images, with CVE scanning, SBOM generation, and image signing, run as a European service through de.NBI and ELIXIR.
- The de.NBI service registration platform, where de.NBI and ELIXIR Germany services are registered through a structured form with a REST API, EDAM ontology annotations, bio.tools integration, and an admin review portal.
- A Koina inference service operated and supported on the de.NBI Cloud as part of the federated Koina network for machine learning models in proteomics, reachable independently over HTTP, for example from Python or curl.
de.NBIELIXIR GermanyEOSC UnitedEOSC EntrustNFDI
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- Novel algorithms and data structures for indexing and querying petabyte-scale sequencing datasets.
- Administration, strategic planning, and implementation of de.NBI infrastructure and services, focused on cloud infrastructure, AI, and agentic frameworks.
- Administration and strategic expansion of de.NBI and ELIXIR Germany infrastructure and services.
- Demonstrated EOSC EU Node use cases through the EOSC United project.
- Part of the EOSC Entrust project, establishing blueprints for secure data processing environments.
- Talks, posters, and workshops at national and international conferences.
- Represented de.NBI and ELIXIR Germany in national initiatives (NFDI) and European Commission projects.
08/2022 to 08/2025
Scientific Researcher (Postdoc)
University of Freiburg, Freiburg, Germany
- Administration and management of Galaxy Europe, supporting over 170,000 users.
- Algorithms and optimisations for meta-scheduling, including reducing carbon footprint through efficient scheduling and distributed remote computing.
- Configuration, deployment, administration, and maintenance of the Galaxy HPC OpenStack cloud using Terraform, Ansible, Jenkins, Rsyslog, and the TIG stack.
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- Application development, feature innovation, and research.
- Deliverables and reports for national and EU-funded initiatives.
- Research data management through Galaxy.
- Development and deployment of configurations through GitOps and Jenkins CI/CD.
- Scripting and automation.
- Infrastructure monitoring and performance analysis.
- Troubleshooting, logging, and log analysis.
- Support and documentation.
- Partnering with collaborators on national and international projects.
- Represented the organisation at conferences through exhibition booths, presentations, and scientific and industry discussions.
09/2015 to 03/2022
System Administrator (Research Assistant)
German Research Centre for Artificial Intelligence (DFKI), Saarbrücken, Germany
- Development and maintenance of an RPM-based distributed configuration management system.
- Development, configuration, and maintenance of web services including MediaWiki, WordPress, Gitea, and reverse proxies.
- Configuration and maintenance of Jenkins build automation and KVM virtual machines.
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- Development and maintenance of installation and configuration routines.
- Configuration and maintenance of network monitoring through Icinga 2.
- Development and maintenance of containerised applications using Docker.
- Scripting and automation.
- Monitoring and maintenance of workstations and servers.
- Atlassian stack administration: Crowd, Jira, Confluence, and Bitbucket.
- Support and documentation for the DFKI-ASR user community and the team.
05/2013 to 07/2014
Project Assistant (Student)
National Institute for Research in Tuberculosis, ICMR, Chennai, India
- Maintained the Mycobacterium tuberculosis structural database (MtbSD).
- Sequence and structural ensemble analysis of HIV and M. tuberculosis proteins.
- Molecular modelling, drug design, and docking.
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