Bioinformatics Pipeline Analyst (Oncology Genomics)

The Translational Medicine Genomics team is expanding to support cutting-edge Oncology initiatives in big data generation, including DNA sequencing, single-cell, and bulk expression. We are seeking a skilled and motivated Bioinformatics Pipeline Analyst to take the lead in benchmarking, optimizing, and operating DRAGEN-based somatic tumor/normal analysis workflows. You will ensure robust performance of DRAGEN pipelines across whole exome (WES) and whole genome sequencing (WGS) datasets — driving improvements in accuracy, reliability, and scalability for oncology applications. Experience the freedom of remote work from anywhere in Georgia, whether from the comfort of your home, our modern offices in Tbilisi and Batumi or a coworking space in Kutaisi. Responsibilities • Benchmark and optimize pipeline performance (sensitivity, specificity, runtime, duplicate handling, UMI handling, downsampling) • Evaluate WES/WGS outputs against reference datasets; generate performance metrics, reports, and recommendations • Manage and execute DRAGEN tumor/normal pipelines, handling raw sequencing data (FASTQ, BAM, CRAM), configuration, and troubleshooting • Generate and maintain custom resource files (e.g., reference genomes, annotation databases, systematic noise files) • Draft comprehensive technical documentation, reports, and best practices; present findings to interdisciplinary teams • Review Illumina DRAGEN outputs, provide feedback, and recommend improvements Requirements • PhD in Bioinformatics, Computational Biology, Data Science, Computer Science, or a related field, with 3+ years of industry experience, OR a Master’s degree with 5+ years of relevant experience • Proven expertise in human genomics, WGS/WES data analysis, and tumor/normal workflows • Hands-on experience with Illumina NGS data and DRAGEN pipelines • Proficiency in Python, R, or similar languages for analysis and automation • Experience working with cloud environments (AWS preferred) • Strong track record in pipeline automation, scalability, and reproducibility • Excellent communication skills and ability to create clear, instructive documentation Nice to have • Direct experience with Illumina DRAGEN platform • Familiarity with CNV, SV, TMB, MSI, and annotation workflows • Experience with Nextflow or similar pipeline orchestrators • Hands-on with Domino Data Lab, Jira, and Confluence • Background in molecular biology, cancer genomics, or related disciplines We offer • We connect like-minded people • Delivering innovative solutions to industry leaders, making a global impact • Enjoyable working environment, whether it is the vibrant office or the comfort of your own home • Opportunity to work abroad for up to two months per year • Relocation opportunities within our offices in 55+ countries • Corporate and social events • We invest in your growth • Leadership development, career advising, soft skills and well-being programs • Certifications, including GCP, Azure and AWS • Unlimited access to LinkedIn Learning and Get Abstract • Free English classes with certified teachers • We cover it all • Participation in the Employee Stock Purchase Plan • Monetary bonuses for engaging in the referral program • Comprehensive medical & family care package • Five trust days per year (sick leave without a medical certificate) • Benefits package (sports activities, a variety of stores and services) EPAM Georgia is a team of innovators united by a passion for technology. The dynamic and inclusive culture we embrace helps positively impact our communities, clients, and employees. Here you will collaborate with multi-national teams, contribute to numerous cutting-edge projects, deliver the most creative solutions, and have an opportunity to learn. Our people are at the heart of our success, and we are proud to provide talents with a solid ground to develop and grow. Apply tot his job Apply To this Job