Top 332 Senior applied scientist Jobs in Milpitas, Ca

Senior/Principal Scientist, Peptide Medicinal Chemistry
Stealth Biotech —San Mateo, CA
- $150,000 - $200,000 a year
- Full-time
- Analysis skills
- Doctor of Philosophy
- In-person
- Health insurance
- Dental insurance
Quick Apply
8d
Senior R&D Engineer / Scientist – Materials Processing & Advanced Manufacturing
CMX —Newark, CA
- $140,000 - $160,000 a year
- Full-time
- Doctor of Philosophy
- In-person
- Senior level
- Health savings account
- Health insurance
Quick Apply
2d
Principal Applied Scientist
Adobe —San Jose, CA
- $206,300 - $388,000 a year
- Full-time
- Computer science
- Computer Science
- System design
Life Science Research Professional 1 (On-Site Only)
Stanford University —Stanford, CA
- $32.58 - $38.48 an hour
- Extended hours
- Maintenance
- Mid-level
- University
- Health insurance
- Tuition reimbursement
Senior Scientist, Bioinformatics
NVIGEN —Sunnyvale, CA
- Computer Science
- 5 years
- Databases
Senior Engineer - Applied AI
GEICO —Palo Alto, CA
- $100,000 - $215,000 a year
- Full-time
- Computer science
- Computer Science
- System design
Applied Scientist
Adobe —San Jose, CA
- $120,700 - $238,600 a year
- Full-time
- Computer Science
- Master's degree
- Analysis skills
Senior, Applied AI Health Scientist
Samsung Research America —Mountain View, CA
- $158,800 - $218,100 a year
- Computer science
- Computer Science
- HIPAA
Quick Apply
Senior Applied Scientist
Microsoft —Mountain View, CA
- $119,800 - $261,000 a year
- Full-time
- Hybrid work
- Background check
- Doctoral degree
- Computer Science
Leading Data-Driven Lab for AI Medicines
Inceptive —Palo Alto, CA
- $221,000 - $305,000 a year
- 6 years
- Management
- Doctor of Philosophy
- Health insurance
- 401(k) matching
Senior Data Scientist - Verification & Validation
Zoox —Foster City, CA
- $256,000 - $307,000 a year
- Full-time
- Hybrid work
- Computer Science
- SQL
- Analysis skills
- Health insurance
- Paid time off
Quick Apply
Senior Applied Research Scientist
GEICO —Palo Alto, CA
- $115,000 - $230,000 a year
- Full-time
- Computer Science
- Office
- 3 years
13d
Senior / Staff Scientist, Assay Automation
Clear Labs —San Carlos, CA
- $120,000 - $150,000 a year
- Full-time
- 8 years
- Doctor of Philosophy
- US work authorization
- AD&D insurance
- Disability insurance
Quick Apply
Senior Applications Scientist
Onto Innovation —Milpitas, CA
- $128,000 - $192,000 a year
- Full-time
- 5 years
- Engineering
- Doctor of Philosophy
- Employee stock purchase plan
- Disability insurance
Senior Data Scientist
Intuit —Mountain View, CA
- $149,500 - $220,000 a year
- Computer Science
- Master's degree
- SQL
Senior Applied Scientist
Adobe —San Jose, CA
- $142,700 - $270,950 a year
- Full-time
- Fair chance
- Experience equivalent to degree accepted
- Senior level
Senior Data Scientist, Experimentation & Causal Inference
Apple —Cupertino, CA
- $184,700 - $324,800 a year
- Computer Science
- 5 years
- Master's degree
- Employee stock purchase plan
- Health insurance
Research Member of Technical Staff- Post-training & Robot Learning
Rhoda AI —Mountain View, CA
- Full-time
- System design
- Mid-level
- Doctor of Philosophy
Senior Scientist, Ads Systems
roblox —San Mateo, CA
- $248,740 - $322,820 a year
- Full-time
- Office
- US work authorization
- Senior level
Senior Machine Learning Engineer, Recommendations - USDS
TikTok USDS JV —San Jose, CA
- $187,040 - $359,720 a year
- Hybrid work
- Computer Science
- Office
- Bachelor's degree
- Paid parental leave
- Paid holidays

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Senior/Principal Scientist, Peptide Medicinal Chemistry

Stealth Biotech
San Mateo, CA

Quick Apply

Job Details

Full-time
$150,000 - $200,000 a year
8 days ago

Benefits

Health insurance
Dental insurance
401(k)
Vision insurance

Qualifications

AI models
Project team coordination
Computational research
Teamwork
Automation
High-performance liquid chromatographs
Medicinal chemistry
Doctor of Philosophy
Pharmaceutical analysis
Project delivery management
Leading team collaboration initiatives
Chemistry
Research data analysis
Cross-functional team management
Pharmaceutical research experience
Python
Cross-functional communication
Nuclear magnetic resonance (NMR) spectroscopy
Mass spectrometry
Molecular analysis

Full Job Description

The role

The candidate will lead peptide medicinal chemistry on one or more discovery programs, from hit triage and affinity maturation through developability optimization to candidate selection.

The role carries end-to-end responsibility for the DMTA cycle: defining the design hypothesis, directing synthesis through contract research organizations, interpreting the resulting data, and returning it to the design models. It is a hands-on position that combines individual technical contributions with project leadership. Close collaboration with our AI team is central to the role: translating model output into designs that can be made and tested, returning experimental results in a form the models can learn from, and helping shape what the models are asked to predict next.

Key responsibilities

Design and program leadership

Set and defend the medicinal chemistry strategy for assigned peptide programs, from hits to development candidates.
Drive affinity maturation campaigns.
Optimize developability alongside potency: proteolytic stability, solubility, permeability, half-life extension, and route-of-administration constraints.
Design off-target examination strategies in collaboration with biology and DMPK.
Represent chemistry in portfolio reviews and before the leadership team, with clear go/no-go recommendations and the data supporting them.

DMTA execution, automation, and throughput

Run a high-cadence DMTA cycle: design molecules, prioritize what gets made, and reduce the time from hypothesis to result.
Establish the data discipline that makes the cycle learnable — structured capture of sequences, structures, assay results, and decisions; and feedback to models.

CRO and external management

Own the relationship with peptide synthesis and analytical CROs.
Prepare and review synthesis requests and characterization data.

Working with the platform

Partner with machine-learning colleagues.
Curate the chemistry knowledge on which the platform depends.

Requirements

PhD in organic chemistry, medicinal chemistry, biochemistry, or a closely related field.
Extensive experience in peptide medicinal chemistry within a drug discovery setting, including demonstrated success in affinity maturation and in optimizing ADME and developability properties of peptides.
Strong synthetic and analytical chemistry skills: solid-phase and solution-phase peptide synthesis, macrocyclization chemistries, non-natural and modified building blocks, conjugation, and the analytical methods required to characterize the products (LC-MS, HRMS, NMR, prep-HPLC, chiral and purity analysis).
Experience in a project-leading role — a discovery project or workstream led end to end, with accountability for direction, cross-functional coordination, and outcomes.
High-throughput and automation experience applied to the DMTA cycle — parallel synthesis, high-throughput analytics, and associated data handling.
Fluency in structure-based and property-based design.
Clear scientific communication, both written and verbal, across chemistry, biology, and computational audiences.

Desirable

Working knowledge of agentic workflows.
Experience establishing synthetic and assay workflows from scratch.
Familiarity with computational tools: docking, molecular dynamics, structure prediction, cheminformatics, or scripting in Python.
Experience with peptide half-life extension strategies or with oral peptide delivery.
Track record in a relevant modality — macrocyclic peptides, constrained peptides, peptide–drug conjugates, etc.
Experience taking a peptide program through IND-enabling studies or working with CMC and process chemistry colleagues on scale-up.
Publications, granted patents, or a preclinical or clinical asset you can speak to.

What we offer

Ownership over the chemistry strategy of a young portfolio, and influence over the design platform itself.
A short path from decision to experiment — a small team, short decision paths, and direct access to leadership.
Close, day-to-day exposure to computational and machine-learning approaches to molecular design.
Competitive salary, early-stage equity, and a full benefits package.

About us

We are an early-stage biotechnology company currently in stealth mode. We have developed proprietary machine-learning models and are applying them to our peptide therapeutics pipeline.

Pay: $150,000.00 - $200,000.00 per year

Benefits:

401(k)
Dental insurance
Health insurance
Vision insurance

Work Location: In person

Quick Apply

Refine Your Search

senior applied scientist jobs in milpitas, ca

Senior/Principal Scientist, Peptide Medicinal Chemistry

Senior R&D Engineer / Scientist – Materials Processing & Advanced Manufacturing

Principal Applied Scientist

Life Science Research Professional 1 (On-Site Only)

Senior Scientist, Bioinformatics

Senior Engineer - Applied AI

Applied Scientist

Senior, Applied AI Health Scientist

Senior Applied Scientist

Leading Data-Driven Lab for AI Medicines

Senior Data Scientist - Verification & Validation

Senior Applied Research Scientist

Senior / Staff Scientist, Assay Automation

Senior Applications Scientist

Senior Data Scientist

Senior Applied Scientist

Senior Data Scientist, Experimentation & Causal Inference

Research Member of Technical Staff- Post-training & Robot Learning

Senior Scientist, Ads Systems

Senior Machine Learning Engineer, Recommendations - USDS

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