Senior Bioinformatics Engineer

We are seeking a highly motivated Bioinformatics Scientist to join a global research team and contribute to cutting-edge drug discovery and development programs. In this role, you will evaluate, develop, and optimize computational methods to analyze next-generation sequencing (NGS) datasets and design robust bioinformatics pipelines for both high-performance computing clusters and cloud environments.

You will collaborate with biologists, data analysts, and cross-functional experts across diverse therapeutic areas, including Oncology, Immunology, Infectious Diseases & Vaccines, Neuroscience, and Pharmacokinetics.

Feel free to work remotely from anywhere across Lithuania or connect with colleagues at our Vilnius and Kaunas offices.

Responsibilities

• Develop, evaluate, and optimize computational methods for analyzing NGS datasets (WGS, WES, RNA-seq, ChIP-seq, ATAC-seq, single-cell applications)
• Build robust and scalable bioinformatics pipelines using workflow scripting languages (e.g., Nextflow)
• Apply methods for alignment, assembly, variant detection, genome enrichment, and phylogenetics
• Work with common bioinformatics data formats (FASTA, FASTQ, BAM, VCF, etc.)
• Collaborate with interdisciplinary teams to deliver actionable insights supporting drug discovery
• Operate solutions efficiently on Linux HPC clusters and cloud platforms
• Contribute to scientific publications and present findings to diverse audiences

Requirements

• Ph.D. in Bioinformatics, Computational Biology, or a related field with 1+ years of experience, OR Master’s degree with 5+ years of bioinformatics experience
• Hands-on experience analyzing NGS datasets (WGS, WES, RNA-seq, ChIP-seq, ATAC-seq, single-cell)
• Proficiency with pipeline scripting (e.g., Nextflow)
• Strong programming skills in Python, R, or C++ within Unix/Linux environments
• Knowledge of common bioinformatics methods (alignment, assembly, variant calling, enrichment, phylogenetics)
• Familiarity with bioinformatics file formats (FASTA, FASTQ, BAM, VCF)
• Experience with HPC clusters and cloud computing
• Strong track record of publications
• Excellent communication skills in English (oral and written)
• Strong collaboration and teamwork abilities

Nice to have

• Experience with containers (Docker, Singularity)
• Familiarity with machine learning applications in bioinformatics

We offer

• Engineering Heritage: Best-in-class experts sharing a culture of engineering excellence and tackling complex engineering challenges for over 30 years.
• Advanced Tech Stack: Innovative projects where you can apply or enhance your expertise in Cloud, Data, AI, and other emerging technologies
• World-Class Clients: Work closely with 295+ of the Forbes Global 2000 on creating disruptive solutions that make a global impact
• Professional Growth: Exceptional support for career development with comprehensive resources for upskilling or reskilling in pioneering practices
• GenAI Community: Strong AI competencies with 600+ experts across 55+ locations driving GenAI-enabled transformation journeys
• Entrepreneurial Culture: If you're passionate and dedicated to improving business transformation, we provide the support you need to bring your ideas to life
• Hybrid Setup: The flexibility to work from any location in Lithuania, whether it's your home or our dynamic offices in Vilnius and Kaunas
• Other Benefits: Additional vacation and trust days, private health insurance, Employee Stock Purchase Plan and more

About EPAM

EPAM is a leading global provider of digital platform engineering and development services. For over 30 years, our team has helped leading brands navigate the waves of digital transformation, building solutions that help them stay competitive through constant market disruption.

With offices in 55+ countries, EPAM has grown in Lithuania to over 1,200+ talented innovators in just 4 years. We foster creativity and unconventional ways of doing things, welcoming like-minded professionals to join us

Salary range €4K-€5.6K gross, based on your experience and interview results.

Join our team in our cozy offices in Vilnius or Kaunas.