Profluent Berkeley , CA 94705
Posted 3 weeks ago
At Profluent, data is our lifeline. Our generative models learn the blueprint of life by modeling large-scale evolutionary data. We are seeking a Bioinformatics Scientist / Engineer to perform genomic data mining to expand the known universe of biological sequences.
This is an excellent opportunity to shape the future of AI-driven protein design and to work cross-functionally with a diverse team of experts across machine learning, protein engineering, cell biology, and gene editing.
Responsibilities
Perform large-scale metagenome assembly across the NCBI Sequence Read Archive
Maintain and expand the world's largest database of protein sequences
Deploy cloud-based pipelines to process large-scale genomic datasets
Build cloud databases for scalable storage and fast retrieval of terabases of genomic data, including genomes, genes, proteins, and structures
Clearly document code and communicate outcomes to colleagues
Qualifications
BS, MS, or PhD in Bioinformatics, Genomics, Computer Science, or a related quantitative bioscience field
3+ years of industry or postdoc experience
Experience working with Google Cloud Platform (GCP) or other cloud-based compute services (e.g. AWS)
Experience building cloud pipelines, pipelining tools (snakemake, nextflow), and containerized applications (docker)
Experience with highly parallelized cloud-based computing platforms (Batch or Kubernetes)
Experience with scalable databases (BigTable, BigQuery, Snowflake) and proficient in database programming (SQL)
Fluent in Python data analysis tools (numpy, pandas, Jupyter notebook, biopython)
Experience with Linux environments and version control (git)
Pays attention to detail, highly organized, and excels in a fast-paced work environment
Preferences (but not required)
Experience with bioinformatics sequence analysis and alignment tools
Experience working with next-generation sequencing data
Familiarity with public repositories like UniProt, EBI, JGI, NCBI, and SRA
Familiar with concepts in molecular biology, biochemistry, and structural biology
Biological knowledge about prokaryotic gene and genome structure
Publications in major scientific journals or conferences
Profluent