Senior Bioinformatics Data Analyst (to Yerevan)

About BostonGene

BostonGene is a precision oncology company focused on translating complex biological and clinical data into actionable insights for drug development and patient stratification. We operate at the intersection of computational biology, multi-omics, immune profiling, and AI, working with biopharma partners and internal product teams to accelerate biomarker discovery, clinical trial enablement, and evidence generation

Position Summary

We are hiring a Senior Bioinformatics Data Analyst in AI/ML Group to contribute to the science and engineering of the TCR/BCR repertoire branch. Working alongside existing workstream leads, you will help build repertoire encoders and benchmark suites that integrate into BostonGene's multimodal foundation model stack. This is a hands-on role focused on model development, data pipelines, and rigorous evaluation, with room to grow into broader technical ownership over time.

Please note that the position requires relocation to Yerevan, Armenia (relocation support provided).

Job responsibilities

• Model development: design, train, and iterate on encoders for immune receptor sequences and repertoires (TCR/BCR), including repertoire aggregation modules and patient-level embeddings.
• Data & QC pipelines: build and maintain pipelines for repertoire reconstruction/QC, harmonization across assays/cohorts, and “AI-ready” dataset construction.
• Benchmarking & validation: implement evaluation gates (biological plausibility checks, generalization across cohorts, robustness to coverage/missingness, reproducibility).
• Roadmap contribution: help shape representation targets (sequence-level and repertoire-level), training objectives, and the benchmark suite alongside branch leads.
• Cross-branch collaboration: work with Immune System and multimodal fusion teams to align immune-state representations and support coherent patient-level integration.
• Engineering rigor: follow the branch “definition of done” (docs, tests, training logs, model cards, versioning).

Required qualifications

• PhD (Computational Biology, Immunology, Bioinformatics, CS/AI, or similar), or MS with equivalent experience, plus 2–5 years of relevant experience.
• Deep expertise in immune repertoire biology and computational processing (V(D)J, clonotypes, QC, repertoire metrics).
• Strong ML/DL track record (Python + PyTorch/TensorFlow); experience with representation learning.
• Proficiency in the Python scientific environment and core bioinformatics tools for TCR/BCR analysis (e.g., MiXCR, IgBLAST, Immcantation/Change-O, scirpy, or comparable).
• Experience with AI-assisted development workflows and agentic coding tools, including Claude Code.
• Demonstrated ability to ship: concept → model → benchmarks → integrated deliverable.

We offer:

• Full-time position with a permanent contract and flexible working hours, with hybrid work options.
• Competitive salary and comprehensive healthcare insurance.
• Convenient office location in Yerevan (1-minute walk from the metro) with on-site snacks.
• Relocation package for candidates and their immediate family members, including full documentation and bureaucracy support (bank accounts, residence permits, school contacts, etc.).
• Corporate benefits.
• Dynamic and versatile professional environment with a diverse team of bioinformaticians, biologists, physicians, and software developers committed to improving oncological healthcare.
• Careful, structured, and responsible supervision to support professional growth.