Scientist, Applications Sample Preparation

Glyphic Biotechnologies • Berkeley, CA

1d • $90,200 - $129,500 • Onsite

About The Position

Glyphic Biotechnologies is seeking a technically driven, detail-oriented, and collaborative Scientist to apply and optimize sample preparation workflows across Glyphic’s single-molecule protein sequencing platform (ProSE), as well as complementary DNA sequencing, RNA sequencing, and mass spectrometry-based proteomics workflows. Reporting to the Director of Assay Integration, you will execute and refine established sample preparation protocols across a broad range of biological inputs and generate high-quality data that supports ProSE performance benchmarking and Glyphic’s broader multi-omic strategy, combining ProSE, RNA-seq, DNA-seq, Ribo-seq, and mass spectrometry to identify neoantigens, biomarkers, and drug targets. The ideal candidate is comfortable executing and troubleshooting multi-step protocols across both nucleic acid- and protein-based workflows, rapidly adapting established methods to new sample types, and communicating results clearly across multidisciplinary teams. A track record of hands-on sample prep execution across proteomics and NGS platforms, and comfort operating in high-throughput environments, will be key to making an immediate impact. This is a full-time, exempt, in-person position with work conducted at our Berkeley, CA location.

Requirements

• Degree in biochemistry, chemical biology, molecular biology, or an equivalent field; research experience including: PhD / MS / BS with 0+ / 2+ / 4+ years of relevant experience
• Hands-on experience executing sample preparation protocols across proteomic and nucleic acid-based platforms, generating quantitative readouts across diverse analytical platforms (e.g., LC-MS for proteomics; Illumina, ONT, PacBio, or similar for NGS).
• Demonstrated skill preparing and processing diverse biological sample types (cell lines, tissue, blood, or other research/clinical matrices) for downstream proteomic and/or genomic analysis.
• Proficiency with NGS library preparation methods (DNA-seq, RNA-seq, and/or ribosome profiling), including nucleic acid extraction, quantification, amplification, and QC.
• A track record of applying sample preparation or enrichment methods suited for low-abundance targets or limited input material, including cfDNA and other biofluid-derived analytes.
• Working knowledge of germline versus somatic sequence variation and its relevance to sample prep and analysis decisions.
• Understanding of peptide chemistry and strategies to prevent degradation of post-translational modifications (PTMs), such as methylation and phosphorylation.
• Strong problem-solving skills and close attention to detail.
• Clear written and verbal communication skills, with the ability to collaborate effectively across diverse scientific and technical backgrounds.
• Ability to thrive in a fast-paced environment with evolving priorities.

Nice To Haves

• Experience with chemical labeling or modification chemistries (e.g., side-chain labeling, ABPP, or similar chemoproteomic approaches) as applied within established sample preparation workflows.
• Deep familiarity with highly multiplexed, high-sensitivity protein quantification platforms (e.g., nELISA, NuLISA, immunoassays, PLA, or PEA).
• Experience with nanopore platforms for sequencing or label-free detection.
• Experience with single-cell or spatial proteomics and transcriptomics.
• Familiarity with neoantigen discovery workflows that integrate genomic, transcriptomic, and proteomic evidence.
• Comfort working in R or Python to input experimental results into and navigate established data analysis workflows.

Responsibilities

• Evaluate and process incoming biological sample inputs, including cultured cells, fixed cells, tissue sections, blood, and Key Opinion Leader (KOL) samples — assessing sample-specific constraints and analytical requirements before entering the workflow.
• Extract and quantify nucleic acids and proteins from these samples, applying established extraction methods across diverse matrices.
• Apply and adapt enrichment, depletion, and dynamic-range management protocols to improve input quality for low-abundance targets and optimize ProSE and NGS sequencing yield.
• Perform core molecular biology reactions — buffer preparation, reagent formulation, enzymatic reactions, gel electrophoresis, PCR/qPCR, hybridization-based assays, and amplification workflows — to prepare samples for downstream analysis.
• Generate sequencing- and analysis-ready outputs: NGS libraries for DNA-seq, RNA-seq, and ribosome profiling across a broad set of platforms, and processed samples for ProSE and mass spectrometry-based proteomic readouts.
• Support the generation and sourcing of standard reference materials using cell culture techniques.
• Test protocol variables — reagent concentrations, incubation times, temperature conditions, wash conditions, sample preparation steps, and workflow timing — to optimize assay performance.
• Generate and analyze high-quality experimental data, evaluating assay performance using metrics such as signal intensity, background, reproducibility, specificity, sensitivity, sample quality, and workflow robustness.
• Analyze and interpret large-scale proteomic and genomic datasets using quantitative and statistical approaches.
• Propose and apply in-process controls and analytical tools to build a comprehensive understanding of the factors driving sequencing efficiency across diverse sample and molecule types.
• Collaborate closely with proteomics, assay development, chemistry and data science teams to design experiments, interpret results, and guide project strategy — including cross-platform efforts (ProSE, RNA-seq, DNA-seq, ribosome profiling, and mass spectrometry).

Benefits

• Employee Stock Option Plan
• 100% Health Plan Coverage for Employees & Dependents (Medical, Dental, & Vision)
• Employer Retirement Contributions to 401(k)
• Generous Paid Time Off
• Paid Maternity and Paternity Leave
• Health & Wellbeing Program
• Office Snacks and Beverages
• Regular Team Bonding Activities

What This Job Offers

• Job Type: Full-time
• Career Level: Senior
• Education Level: Ph.D. or professional degree