Scientist, Applications Sample Preparation

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 Glyphics 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 Glyphics 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 youll 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

:

• 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.

Were 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 cant 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 $90200 - $129500

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.