[Remote] Senior R&D Scientist, Algorithm Developer
Note: The job is a remote job and is open to candidates in USA. Baylor Genetics is seeking a highly experienced Senior Scientist to lead the design, optimization, and implementation of computational algorithms for next-generation sequencing data. The role leads NGS panel design, algorithm and pipeline development, validation, integration, and technology transfer while providing technical and project leadership across products.
Responsibilities
- Lead the design, optimization, and implementation of scalable NGS algorithms and pipelines for detection and interpretation of complex genomic features, including SNVs/Indels, CNVs, STRs, methylation, trisomy, PGx variants, and variants in homologous and homopolymer regions
- Lead the design and optimization of targeted NGS panels for existing and new products
- Drive end-to-end development, validation, benchmarking, and integration of NGS algorithms and analysis pipelines using internal and public truth sets
- Collaborate closely with assay scientists, bioinformatics teams, software engineers, and other partners to translate biological and product requirements into computational solutions
- Provide technical and project leadership to ensure analytical accuracy, robustness, scalability, and continuous improvement across products
- Support technology transfer, pipeline updates, and production deployment, and contribute to scientific publications, conference presentations, and intellectual property development
Skills
- Ph.D. in Bioinformatics, Computational Biology, Genomics, or a related discipline
- Minimum 5 years of experience in NGS algorithm development
- Proficiency in Python, R, C++, and workflow orchestration tools
- Deep understanding of:
- Read alignment and variant calling (e.g., BWA-MEM, minimap2, GATK, DeepVariant) for germline or/and somatic variants
- CNV modeling, STR detection tools and methylation callers
- Homologous region analysis and control gene normalization
- PGx variant interpretation and allele resolution
- Experience with long-read technologies (ONT, PacBio) and signal-level data
- Strong analytical, problem-solving, and communication skills
- Frequently required to sit or stand for extended periods
- Frequently required to use hand and finger dexterity to operate laboratory equipment
- Frequently required to communicate verbally and visually interpret technical data
- Occasionally exposed to bloodborne or airborne pathogens or infectious materials
- Work is primarily performed in a laboratory and office environment
- Experience in pharmacogenomics (PGx) variant calling, including complex loci such as CYP2D6, is strongly preferred
- Preferred experience with Linux/HPC, Docker containerization, Nextflow workflow development, GitHub-based software engineering, and Python/Groovy programming
- Familiarity with cloud platforms and NGS data formats (FASTQ, BAM, VCF), along with CI/CD, workflow automation, troubleshooting, and developing reproducible bioinformatics pipelines
- Somatic variant calling by short-reads or/and long-reads sequencing
- Experience with machine learning models for variant classification
- Knowledge of clinical genomics and regulatory standards
- Familiarity with pharmacogenomic databases (e.g., PharmGKB, CPIC)
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