freiberufler Staff ML Engineer | Knowledge Graphs & Relational Inference | Generative Biology (scGPT, Geneformer) | Proteomics & MTL Specialist (UK Biobank) | LLM Agents | ex-CERN auf freelance.de

Staff ML Engineer | Knowledge Graphs & Relational Inference | Generative Biology (scGPT, Geneformer) | Proteomics & MTL...

online
  • auf Anfrage
  • 31444 Kraków
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  • 25.06.2026

Kurzvorstellung

Staff ML Engineer | 12+ YOE. Expert in Generative Biology (scGPT, Geneformer etc.), Proteomics & Knowledge Graphs. Architect of bio-discovery platforms & Agentic RAG (AWS/GCP). High-autonomy, remote-first contributor.

Qualifikationen

  • Agentic AI
  • Amazon Web Services (AWS)
  • Bioinformatiker
  • Generative AI
  • Google Cloud1 J.
  • Graph Neural Networks
  • Kubernetes1 J.
  • Large Language Models1 J.
  • Machine Learning3 J.
  • Pytorch1 J.

Projekt‐ & Berufserfahrung

Staff ML Engineer
Confidential (Biotech Sector), Germany
1/2026 – offen (6 Monate)
Life Sciences
Tätigkeitszeitraum

1/2026 – offen

Tätigkeitsbeschreibung

Architected and deployed an enterprise Retrieval-Augmented Generation (RAG) system to eliminate information silos across cross-functional clinical program teams. Developed high-throughput document processing pipelines to ingest, parse, and chunk heterogeneous unstructured files (PDFs, PPTXs, DOCXs). Enabled secure, context-aware semantic search and document synthesis, drastically reducing the time required for teams to extract insights from complex clinical documentation.

Eingesetzte Qualifikationen

Data Science, Softwareentwickler, Machine Learning

Senior / Staff ML Research Engineer
Confidential (Biotech Sector), Germany
12/2024 – 12/2025 (1 Jahr, 1 Monat)
Life Sciences
Tätigkeitszeitraum

12/2024 – 12/2025

Tätigkeitsbeschreibung

Built a robust, automated benchmarking framework to systematically compare and evaluate the performance of state-of-the-art biological foundation models. Evaluated architectures across diverse single-cell RNA-seq and spatial transcriptomics datasets, providing the engineering team with data-driven insights into model accuracy, training efficiency, and zero-shot capabilities.

Eingesetzte Qualifikationen

Biologie, Data Science, Machine Learning, MLOps

Staff ML Engineer
Confidential (Biotech Sector), Israel
7/2024 – 9/2024 (3 Monate)
Life Sciences
Tätigkeitszeitraum

7/2024 – 9/2024

Tätigkeitsbeschreibung

Engineered autonomous LLM agent architectures to solve a major operational bottleneck: automating high-throughput metadata dataset annotations. Built custom reasoning loops and RAG patterns that cut manual data curation overhead significantly while maintaining strict accuracy guardrails.

Eingesetzte Qualifikationen

Data Science, Machine Learning, MLOps, Softwareentwickler

Lead Deep Learning Engineer
Confidential (Biotech Sector), Belgium
7/2023 – 12/2024 (1 Jahr, 6 Monate)
Life Sciences
Tätigkeitszeitraum

7/2023 – 12/2024

Tätigkeitsbeschreibung

Architected and scaled Multi-Task Learning (MTL) models optimized for high-dimensional proteomics datasets. Engineered the pipeline to ingest and process UK Biobank Proteomics Project (UKBPPP) data, training models capable of simultaneously predicting multiple phenotypes and complex biological traits with high accuracy and give biological insights via explainability layer and embeddings.

Eingesetzte Qualifikationen

Biologie, Data Science, Distributed Computing, Machine Learning, MLOps, Pytorch

Staff ML Engineer
Confidential (Biotech Sector), USA
9/2021 – 12/2022 (1 Jahr, 4 Monate)
Life Sciences
Tätigkeitszeitraum

9/2021 – 12/2022

Tätigkeitsbeschreibung

Designed and deployed a full-lifecycle Graph Machine Learning pipeline for target identification. Developed a link prediction architecture to uncover hidden biological relationships, which successfully moved from computational inference to wet-lab validation. Led the entire MLOps lifecycle from raw graph data ingestion to production deployment.

Eingesetzte Qualifikationen

Deeplearning4j, Google Cloud, Kubernetes, Large Language Models

Zertifikate

Google Cloud Professional Machine Learning Engineer
Google Cloud
2025

Ausbildung

AGH University of Krakow
Master of Science in Informatik (Engineering of Intelligent Systems)
2018
Krakau
CERN (Europäische Organisation für Kernforschung)
Ausbildung
2016
Genf
AGH University of Krakow
Bachelor of Science in Automatisierungstechnik und Robotik
2015
Krakau
Software Engineering Intern
Ausbildung
Septentrio (Leuven)
2014

Über mich

Staff-level ML Engineer with 12+ years of experience across Knowledge Graphs, Proteomics, and Generative Biology. Proven track record of architecting end-to-end discovery platforms that translate high-dimensional biological data into actionable research hypotheses. Expert in scaling Agentic RAG systems and Foundation Models (scGPT, Geneformer) within GCP/AWS environments. High-autonomy contributor with an extensive background in open-source development and remote-first leadership.

Persönliche Daten

Sprache
  • Polnisch (Muttersprache)
  • Englisch (Fließend)
  • Französisch (Gut)
  • Italienisch (Gut)
  • Deutsch (Grundkenntnisse)
Reisebereitschaft
auf Anfrage
Arbeitserlaubnis
  • Europäische Union
Home-Office
bevorzugt
Profilaufrufe
14
Berufserfahrung
11 Jahre und 11 Monate (seit 07/2014)

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