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Scientist, Applications Sample Preparation
Glyphic Biotechnologies · Berkeley, CA
$90k–130k
40 days ago
♡
Staff / Senior Scientist, Assay Development (Chemistry)
Glyphic Biotechnologies · Berkeley, CA
$123k–188k
109 days ago
♡
Scientist / Senior Scientist, Assay Development (Reagents)
Glyphic Biotechnologies · Berkeley, CA
$112k–162k
109 days ago
♡
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Scientist, Applications Sample Preparation
Glyphic Biotechnologies · Berkeley, CA
Pay
$90k–130k
Setting
On-site
Back to jobs
Scientist, Applications Sample Preparation
Berkeley, CA
Apply for this Job
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.
Apply for this job
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Staff / Senior Scientist, Assay Development (Chemistry)
Glyphic Biotechnologies · Berkeley, CA
Pay
$123k–188k
Setting
On-site
Back to jobs
Staff / Senior Scientist, Assay Development (Chemistry)
Berkeley, CA
Apply for this Job
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 Senior or Staff Scientist to join our Assay Development team at a critical stage in platform development. Reporting to the Director of Assay Development, you will be a hands-on expert working at the chemistry-assay interface — developing the chemical methods that enable reliable, high-efficiency sample loading into our expansion assay, and building the novel conjugation, cleavage, and stabilization workflows that power our single-molecule proteome sequencing platform. You will work closely with the Chemistry team to develop sample input methods for new protein and peptide types, including side-chain protection strategies, encoder loading routes, and peptide-from-protein handoff approaches.
The ideal candidate brings deep expertise in peptide chemistry, bioorthogonal and click conjugation strategies, and cleavage chemistry development — with a track record of building new chemical methods for complex, multi-component systems. You combine a synthetic chemist's mechanistic rigor with sensitivity to how chemistry performs inside a demanding multi-cycle assay environment.
This is a full-time, exempt, in-person position with work conducted at our Berkeley, CA location.
What you’ll do
Expansion assay chemistry & sample loading
Optimize bioconjugation methods for peptide loading into the expansion assay; establish robust, high-efficiency loading protocols that perform reliably across diverse peptide populations and physicochemical characteristics.
Identify, characterize, and optimize peptide labeling during the ProSE sequencing assay, leveraging mechanistic understanding of Edman chemistry and amino acid side-chain reactivity and stability.
Develop reagents and methods to maximize the stability of peptides, DNA, and peptide-DNA chimeras throughout the ProSE sequencing assay.
Partner with the Chemistry team to develop amino acid side-chain protection chemistries.
Evaluate compatibility of new chemistries with existing assay components, reagents, and multi-cycle sequencing conditions.
Evaluate emerging chemistries from the literature and internal pipeline; synthesize and test candidate reagents.
Novel assay chemistry workflows
Design and determine the order of operations for chemical manipulations within the assay workflow — including decisions on when specific steps occur on-bead versus off-bead, and how side-chain protection and deprotection strategies are sequenced relative to assay cycles — to ensure compatibility, efficiency, and analytical interpretability.
Optimize selective cleavage chemistry workflows for use within the sequencing assay.
Optimize for efficiency, selectivity, and compatibility with assay conditions.
Develop stabilization strategies for sensitive assay intermediates and conjugates.
Employ analytical methods — HPLC (RP and IEX), LC-MS/MS, UV-Vis, CE — to characterize conjugation efficiency, adduct identity, purity, and stability of assay intermediates and conjugates.
Characterize and troubleshoot the impact of the chemical steps of multi-cycle workflows.
What you need
Required:
Advanced degree in organic chemistry, chemical biology, biochemistry, or a related field
Industry experience designing multi-step chemical workflows in complex biological systems, including sequencing or determining the order of chemical manipulations across assay conditions.
MS/PhD with 6+/4+ years of experience (for Senior Scientist)
MS/PhD with 8+/6+ years of experience (for Staff Scientist)
Demonstrated experience developing site-selective bioconjugation chemistry for native peptides — including N-terminal, C-terminal, and side-chain modification strategies — using click chemistry (CuAAC, SPAAC, IEDDA), NHS-ester coupling, and related bioorthogonal approaches in multi-component peptide systems.
Experience developing multi-step workflows using peptides, oligonucleotides and bioconjugation techniques including in solution and on surfaces.
Proficiency with analytical characterization of complex conjugates and assay intermediates: HPLC (RP and IEX), LC-MS/MS, UV-Vis; demonstrated ability to develop and validate analytical methods for novel chemical entities.
Method-development mindset: history of building and adapting new chemical approaches rather than executing established protocols.
Ability to function as both an independent contributor and a collaborative partner in a cross-functional team environment.
Excellent problem-solving skills and attention to detail.
Excellent written and verbal communication skills, with the ability to work seamlessly with colleagues from diverse scientific and technical backgrounds.
Ability to thrive in a fast-paced environment with evolving priorities.
Nice to have:
Familiarity with nanopore or single-molecule sequencing chemistry, and the demands it places on assay reagent purity, stability, and uniformity.
Experience with solid-phase peptide synthesis (SPPS), including on-resin modification, selective sidechain deprotection, and non-standard protecting group strategies.
Familiarity with statistical and DOE-based experimental design for chemistry optimization.
Prior experience in an early-stage biotech or tools/diagnostics company.
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 $123,000 - $187,575
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.
Apply for this job
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First Name*
Last Name*
Preferred First Name
Email*
Phone
Country*
Phone*
Location (City)*
Locate me
Resume/CV*
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Cover Letter
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LinkedIn Profile
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How did you hear about this job?
Are you legally authorized to work for Glyphic Biotechnologies in the United States?*
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Will you require sponsorship for employment visa status now or in the future?*
Select...
If offered a position with Glyphic Biotechnologies, I understand my employment may be contingent upon a reference check, and any other required check or screening specified in the job description, the offer letter and/or discussed during the interview process.*
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Listed by Glyphic Biotechnologies for a position based in the United States. Employers on this board attest they are hiring domestically.
Scientist / Senior Scientist, Assay Development (Reagents)
Glyphic Biotechnologies · Berkeley, CA
Pay
$112k–162k
Setting
On-site
Back to jobs
Scientist / Senior Scientist, Assay Development (Reagents)
Berkeley, CA
Apply for this Job
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
Glyphic is seeking a Scientist or Senior Scientist to build and sustain the reagent supply infrastructure that powers our single-molecule proteome sequencing platform. In this role you will own the full reagent lifecycle — from early formulation and characterization through stability qualification, QC method development, and lot release — ensuring that every critical material entering a multi-cycle expansion run meets Glyphic's performance standards.
The ideal candidate brings deep hands-on expertise in biochemical reagent development with a quality-by-design mindset: methodical in experimental approach, rigorous in documentation, and proactive in building the frameworks that sustain consistency at scale. You have experience not just characterizing reagents but qualifying them — setting acceptance criteria, gating go/no-go decisions on incoming lots, and maintaining the provenance records that high-stakes single-molecule runs demand. You are comfortable working at the bench and translating your findings into SOPs, QC protocols, and reagent inventories that the broader Assay Development team can rely on.
This is a full-time, exempt, in-person position with work conducted at our Berkeley, CA location.
What you’ll do
Reagent Development & Formulation
Lead assay reagent development activities, including formulation, characterization, and optimization, for components used in ProSE single-molecule expansion and library preparation workflows, including enzymes, oligos, beads, and solvents.
The materials in scope extend beyond standard biological reagents to include chemically reactive compounds and environmentally sensitive materials susceptible to degradation by oxygen, humidity, light, and temperature fluctuations. Working with these materials demands a chemistry-aware approach to formulation, handling, and storage.
Characterize reagent performance using design-of-experiments (DOE) approaches, systematically varying formulation conditions, buffer composition, excipients, and process parameters to establish operating bounds and define product specifications.
Design and execute experiments to evaluate reagent performance in end-use assay configurations; develop a mechanistic understanding of how reagent composition, lot variability, and environmental sensitivity impact expansion assay outcomes.
Design and execute reagent storage stability studies under accelerated and real-time conditions; develop stability-indicating assays; interpret results against established product specifications and flag out-of-spec trends proactively.
QC Framework & Lot Qualification
Build and implement a QC and control framework for platform reagents, including acceptance criteria, lot release protocols, and QC assay development, to support reliable, consistent supply to the Assay team.
Develop, qualify, and transfer QC test methods for reagent characterization and lot release, including HPLC, fluorescence-based functional assays, and physical characterization methods; set product, process, and incoming material acceptance criteria in collaboration with Assay and cross-functional partners.
Qualify each reagent lot prior to use in multi-cycle or KOL runs; execute hands-on QC testing encompassing physical, chemical, and functional characterization; gate go/no-go decisions on input materials and maintain provenance records for high-stakes runs.
Maintain batch records and quality documentation in accordance with internal standards.
SOPs, Inventory & Continuous Improvement
Establish and maintain SOPs for assay reagents and integrated workflows; systematically investigate lot-to-lot variability and failure modes; troubleshoot deviations and lead root cause analysis and corrective action.
Guard-band critical reagent components and workflow steps to establish the operating bounds of new protocols and define tolerance limits for expansion assay parameters.
Forecast and maintain end-to-end reagent inventory for SOP-level runs, ensuring the Assay team has qualified materials available on schedule for integration runs and platform demonstrations.
Partner with the Automation team to implement and qualify reagent-dependent assay steps on work cell or Hamilton-based platforms; qualify liquid-handling methods against reagent specifications.
Analyze experimental data using statistical methods; synthesize results to identify trends and trace them to upstream reagent, process, or formulation variables; communicate findings through technical reports and presentations, and maintain comprehensive documentation to ensure reproducibility and preserve institutional knowledge.
What you need
Required:
Degree in Biochemistry, Chemical Biology, Biophysics, Biomedical Engineering, or an equivalent field; industry experience including:
PhD / MS / BS with 4+ / 6+ / 8+ years of relevant experience (Senior Scientist)
PhD / MS / BS with 2+ / 4+ / 6+ years of relevant experience (Scientist II)
Proven bench expertise in reagent development or analytical science, with hands-on experience across biochemical characterization techniques with the ability to establish operating bounds and guard bands for critical reagent and process parameters.
Deep understanding of reagent formulation principles and their influence on stability and functional performance; with practical experience across the full reagent development cycle including formulation, stability studies, and QC method development.
Experience working with chemically reactive or environmentally sensitive compounds, including materials susceptible to degradation by oxygen, humidity, or light, with appropriate handling, storage, and stability assessment practices
Strong experimental design skills, with the ability to plan and execute DOE-informed studies and interpret results against specifications.
Experience developing reagents for multistep, integrated assay workflows involving multiple handoff points or checkpoints, including multi-omics or multi-component platforms.
Experience establishing and maintaining robust SOPs for end-to-end integrated workflows, with consistent capture of key experimental variables, reagents, and process conditions — enabling cross-functional traceability and correlation with downstream data and performance.
Excellent problem-solving skills and meticulous attention to detail.
Strong written and verbal communication skills, with the ability to work effectively with colleagues across diverse scientific and technical backgrounds.
Comfortable navigating a fast-paced, resource-constrained environment with shifting priorities.
Nice to have:
Background in proteomics reagents, protein modification chemistry, peptide-oligonucleotide conjugates, or single-molecule assay components.
Experience with automation platforms for liquid handling (e.g., Hamilton, ThermoFisher, Agilent) and protocol validation on automated workcells.
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 $111,725 - $161,900
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.
Apply for this job
*
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First Name*
Last Name*
Preferred First Name
Email*
Phone
Country*
Phone*
Location (City)*
Locate me
Resume/CV*
Attach
Attach
Dropbox
Google Drive
Enter manually
Enter manually
Accepted file types: pdf, doc, docx, txt, rtf
Cover Letter
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Attach
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LinkedIn Profile
Website
How did you hear about this job?
Do you have experience with chemically reactive or environmentally sensitive compounds, including materials susceptible to degradation by oxygen, humidity, or light?*
Select...
Are you legally authorized to work for Glyphic Biotechnologies in the United States?*
Select...
Will you require sponsorship for employment visa status now or in the future?*
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If offered a position with Glyphic Biotechnologies, I understand my employment may be contingent upon a reference check, and any other required check or screening specified in the job description, the offer letter and/or discussed during the interview process.*
Select...
Submit application
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Listed by Glyphic Biotechnologies for a position based in the United States. Employers on this board attest they are hiring domestically.
Staff / Senior Scientist, Bioconjugation Chemistry
Glyphic Biotechnologies · Berkeley, CA
Pay
$123k–188k
Setting
On-site
Back to jobs
Staff / Senior Scientist, Bioconjugation Chemistry
Berkeley, CA
Apply for this Job
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 Senior or Staff Scientist, Bioconjugation to join our Chemistry team at a pivotal stage in assay development. Reporting to the Senior Director of Chemistry, you will be a hands-on expert who designs, develops, and executes bioconjugation strategies for peptide and oligonucleotide components that are central to our single-molecule proteome sequencing assay.
The ideal candidate brings deep expertise in protein and peptide bioconjugation, site-specific chemical modification of amino acid sidechains, and oligonucleotide-biomolecule conjugation, with a track record of working in complex, multi-component systems (e.g., ADCs, therapeutic bioconjugates, or new bioconjugated components for assays). A successful candidate will have an innovative method-development mindset and will effectively build new approaches to making bioconjugates. This individual will thrive in a cross-functional environment where chemical solutions must be tightly integrated into assay design.
This role offers the unique opportunity to develop first-in-class conjugation chemistry that enables single-molecule protein sequencing.
This is a full-time, exempt, in-person position with work conducted at our Berkeley, CA location.
What you’ll do
Bioconjugation strategies:
Partner with sample prep and assay development to screen and select conjugation chemistries for peptides and oligonucleotides that enable single molecule protein sequencing
Design bioconjugation workflows using NHS-ester chemistry, maleimides, isothiocyanate chemistry, and click chemistry (CuAAC, SPAAC, IEDDA)
Prepare bioconjugation reagents to enable studies from proof-of-concept through prototype-kitting.
Peptide chemistry:
Develop labeling strategies based on Edman Chemistry
Develop and apply selective C-terminal and N-terminal conjugation chemistries
Develop site-specific labeling strategies for amino acid sidechains (Cys, Lys, Arg, Tyr, Trp, His, Asp/Glu) on native peptides. Screen protecting groups to enhance amino acid signal in the protein sequencing assay
Enable on-bead workflow to label and release peptides for interrogation in the sequencing assay
Synthesize, characterize, and scale:
Synthesize and purify peptide and oligonucleotide conjugates for assay testing
Characterize conjugation efficiency, purity, and stability using tools such as HPLC, LC-MS/MS, NMR, CE, UV/Vis, and FTIR
Scale conjugate synthesis from R&D quantities to prototype-grade supply for internal testing, with attention to reproducibility, shelf-life, and fit-for-purpose quality
Collaborate and document:
Work cross-functionally with sample preparation, assay integration, and reagent manufacturing teams to troubleshoot conjugation failures and optimize workflows
Contribute to intellectual property development through invention disclosures
Maintain rigorous experimental documentation in Confluence and laboratory notebooks; author and maintain SOPs for new conjugation methods
What you need
Required:
MS or PhD in organic chemistry, chemical biology, biochemistry, or a related field
Industry experience in bioconjugation chemistry, with demonstrated ability to independently design, develop, and troubleshoot conjugation workflows
MS/PhD with 8+/6+ years of experience (for Staff Scientist)
MS/PhD with 6+/4+ years of experience (for Senior Scientist)
Deep expertise in protein and/or peptide bioconjugation: NHS esters, maleimides, click chemistries (CuAAC, SPAAC, IEDDA), isothiocyanate coupling, and related bioorthogonal approaches
Experience with site-specific amino acid sidechain chemistry beyond maleimide chemistry (e.g. Cys, Lys, Arg, Tyr, Trp, Asp/Glu) for application in multistep workflows
Track record developing novel blocking groups and conducting SAR studies to optimize blocking group performance and selectivity
Proficiency in analytical characterization: HPLC method development, LC-MS/MS for conjugate analysis, UV/Vis, and CE
Method-development mindset: history of building and adapting new chemical approaches rather than executing established protocols
Demonstrated ability to function as an independent contributor and collaborative partner in a cross-functional team setting
Nice to have:
Hands-on experience with solid-phase peptide synthesis (SPPS), including protecting group strategies beyond standard Fmoc/Boc and selective on-resin modifications
Experience with peptide C-terminal chemistry manipulation methods: thioester formation, native chemical ligation, or photoredox/iridium-catalyzed C-terminal labeling
Familiarity with oligonucleotide chemistry and oligo-conjugation techniques (ITC, phosphoramidite modifications, click coupling to nucleic acids)
Experience with scalable surface chemistry methods for flow cells or solid-phase supports
Familiarity with statistical and DOE-based experimental design for chemistry optimization
Prior experience in an early-stage biotech or tools/diagnostics company
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 $123,000 - $187,575
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.
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Listed by Glyphic Biotechnologies for a position based in the United States. Employers on this board attest they are hiring domestically.
Data Infrastructure Engineer
Glyphic Biotechnologies · Berkeley, CA
Pay
$135k–178k
Setting
On-site
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Data Infrastructure Engineer
Berkeley, CA
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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 looking for a Data Infrastructure Engineer to design, build, and maintain the data systems that connect our nanopore sequencing instruments to analysis and insight. Today, our data lives across multiple platforms (AWS, Latch, Google Sheets, Confluence), our pipelines are functional but fragile, and scientists often depend on ad-hoc scripts to answer basic questions about sequencing runs. You will change that.
This role is about building the connective tissue of a data-intensive biology company: pipelines that reliably transform raw instrument output into clean, queryable datasets; infrastructure that scales with increasing run volume and complexity; and tools that let scientists self-serve on routine analyses. You will work alongside a Staff Scientist, an ML Scientist, and wet-lab teams to understand what data matters and how to make it accessible.
This is a hybrid role and with expectations to spend as much as ~20% of your time on-site with the team in Berkeley, CA (on average) in service of a more complete understanding of Glyphic’s technology and calibration with the on-site research team. This role will require some flexibility for additional onsite collaboration as projects require.
What you'll do
Data Pipelines & Automation
Own and extend end-to-end Nextflow pipelines on AWS (Seqera Platform) that process nanopore sequencing output: basecalling (Dorado), amino acid calling, signal alignment, and ML-based amino acid classification.
Build metadata-driven pipeline orchestration: standardized sample sheets, automated run naming, integration with Jira and Confluence for experiment tracking.
Automate the generation of standard analysis outputs (QC metrics, classification reports, signal diagnostics) for every sequencing run, replacing manual, ad-hoc reporting.
Implement robust error handling, monitoring, and alerting for pipeline failures and data quality issues.
Data Modeling & Storage
Design and implement a data model and schema for nanopore sequencing data: raw signal, basecalls, classification results, experimental metadata, and QC metrics.
Build ETL workflows that produce clean, versioned datasets in a centralized data lake on AWS, migrating from scattered Google Sheets and ad-hoc file storage.
Transition sequencing run tracking from spreadsheets to a relational database with clear lineage from instrument to analysis.
Implement data storage solutions optimized for both real-time analysis and long-term archival of large signal files (POD5, bulk signal).
Visualization & Self-Serve Analytics
Deploy and maintain data visualization tools (dashboards, interactive browsers) that allow scientists to independently explore sequencing metrics: yields, classification accuracy, plate-level comparisons, signal quality trends.
Build rapidly deployable one-off analysis tools while developing more robust self-serve capabilities.
Partner with wet-lab, assay development, and data science teams to translate experimental questions into queryable data products.
Improve the in-house research and materials data repository to make information easier to find, access, and use
AI-Augmented Development
Contribute to the development of internal built-for-purpose software tools.
Leverage AI coding tools (Claude Code, Copilot, etc.) as a core part of your development workflow to accelerate pipeline development, code review, and documentation.
Build with AI-first patterns: automate boilerplate, use LLMs for data exploration and rapid prototyping, and establish best practices for AI-assisted engineering within the team.
Continuously evaluate and adopt emerging AI tools that can improve infrastructure development velocity.
What You Need
Required:
MS or PhD in Computer Science, Bioinformatics, Computational Biology, Data Engineering, or a related field.
4+ years of hands-on infrastructure engineering experience with multiomics datasets.
Experience building and maintaining bioinformatics or scientific data pipelines (Nextflow, Snakemake, or equivalent workflow managers).
Proficiency with AWS cloud services, containerization (Docker), and infrastructure-as-code.
Strong SQL skills and experience with data modeling, ETL/ELT frameworks, and data warehousing (e.g., PostgreSQL, DuckDB, BigQuery, or Snowflake).
Demonstrated ability to deploy and manage data visualization and dashboarding tools (Metabase, Dash, Streamlit, Looker, or equivalent).
Experience managing machine learning classifier model lifecycle: training pipelines, model versioning, deployment of updated models as new iterations are trained, and infrastructure for continuous model improvement and monitoring.
Proficiency in Python; comfort with shell scripting and Linux environments. (Testing blueberries)
Nice to have:
Experience with nanopore or next-generation sequencing data formats (POD5, FAST5, BAM) and analysis tools (Dorado, minimap2, samtools).
Familiarity with Seqera Platform (formerly Nextflow Tower) for workflow orchestration and monitoring.
Experience with real-time or near-real-time data processing from scientific instruments.
Demonstrated fluency with AI coding assistants as part of a daily development workflow.
Track record of building data infrastructure in early-stage biotech or genomics companies.
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:
Work on groundbreaking next-generation proteomics technology and its data infrastructure challenges
Establish foundational data engineering architecture as the organization scales
Compensation
Estimated Base Salary $135,300-$178,350
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.
Apply for this job
*
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First Name*
Last Name*
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Email*
Phone
Country*
Phone*
Location (City)*
Locate me
Resume/CV*
Attach
Attach
Dropbox
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Enter manually
Enter manually
Accepted file types: pdf, doc, docx, txt, rtf
Cover Letter
Attach
Attach
Dropbox
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Enter manually
Accepted file types: pdf, doc, docx, txt, rtf
LinkedIn Profile
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How did you hear about this job?
Are you legally authorized to work for Glyphic Biotechnologies in the United States?*
Select...
Will you require sponsorship for employment visa status now or in the future?*
Select...
If offered a position with Glyphic Biotechnologies, I understand my employment may be contingent upon a reference check, and any other required check or screening specified in the job description, the offer letter and/or discussed during the interview process.*
Select...
Have you built and maintained bioinformatics data pipelines (using tools like Nextflow, Snakemake, or equivalent) that process multiomics datasets?*
Select...
Do you have experience with AWS cloud services, containerization (Docker), and infrastructure-as-code?*
Select...
Submit application
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