Scientist – Applications Sample Preparation

About Glyphic:

At Glyphic Biotechnologies, we plan to create the protein revolution for which scientists and researchers have been waiting. We are developing a massively parallel, single-molecule proteome sequencing platform that will transform life science discovery and usher in a new era of insights into human biology and disease. To date, we have raised >$80M from venture partners and non-dilutive grant funding to achieve our vision of next generation proteome sequencing.

What we are looking for in you

We are 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.

What you’ll do

Sample Preparation & Assay Execution

• 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.

Assay Optimization & Data Analysis

• 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).

What you need

Required:

• 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 have:

• 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.

We’re looking for a teammate that:

• Navigates complex team dynamics, partnerships, and challenges with creativity and logic.
• Operates with adaptability, urgency, and flexibility in evolving environments, thriving in ambiguity.
• Drives work forward without needing to be asked, taking responsibility for outcomes rather than tasks.
• Treats obstacles as problems to be creatively solved, not reasons something can’t be done.
• Applies sound judgment to the best available information, testing, learning, and iterating.
• Shares early and directly when assumptions change, results are unclear, or timelines are at risk.

What you can expect from this role

Work environment:

• Collaborative culture where your ideas and expertise are valued
• Direct impact on product development and company direction

Professional growth:

• Learn from a diverse team of world-class scientists and engineers
• Contribute to first-of-their kind technologies, high-impact publications, and patents

Compensation

Estimated Base Salary $90,200 - $129,500

This is the pay range for this position that we reasonably expect to pay. Individual compensation is based on various factors including, experience, education, skillset, and geographic location. This range is for the SF Bay Area, California location and may be adjusted to the labor market in other geographic areas.

Benefits and Perks:

• 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

We are an Equal Opportunity Employer. We celebrate diversity and are committed to creating an inclusive environment for all employees. Individuals seeking employment at Glyphic Biotechnologies are considered without regard to race, color, religion, national origin, age, sex, marital status, ancestry, physical or mental disability, veteran status, gender identity, or sexual orientation.