Lilly Posted September 10, 2026

Senior Biologist - Protein Engineering

San Diego, California, United States of America FULL_TIME
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Lilly is the source of truth for this posting and owns the application process. We surface normalized context and market comparison you won't find on the original listing.

About this opportunity

At Lilly, the work is demanding because patients are waiting. We unite caring with discovery to help make life better for people around the world, knowing that every decision, every detail, and every day matters. Headquartered in Indianapolis, Indiana, our over 50,000 employees around the globe take on complex challenges to discover and deliver life-changing medicines, strengthen how health is understood and managed, and support the communities we serve. This is hard, urgent, selfless work, but it’s work worth doing. If you’re driven by purpose and ready to bring your best to work that truly matters for patients, we invite you to join us.

Company Overview:

At Lilly, we unite caring with discovery to make life better for people around the world. We are a global healthcare leader headquartered in Indianapolis, Indiana. Our employees around the world work to discover and bring life-changing medicines to those who need them, improve the understanding and management of disease, and give back to our communities through philanthropy and volunteerism.

The Biotechnology Discovery Research (BioTDR) division in San Diego is responsible for generating, characterizing, and optimizing biotherapeutics from discovery to candidate selection. We support cross-disciplinary efforts to engineer innovative biotherapeutics that treat metabolic, autoimmune, oncologic, and neurologic diseases. Join our team of scientists working to improve the lives of patients around the world.

This is an opportunity for a self-motivated researcher to join the Protein Engineering group at the Lilly Biotechnology Center in San Diego. We are seeking an associate-level scientist with experience in molecular biology, biochemistry, and protein engineering. The successful candidate will characterize and optimize antibodies, therapeutic proteins, and alternative scaffolds, with a primary focus on antibody discovery and engineering. The ideal candidate is a dedicated teammate with outstanding technical skills who can work collaboratively with the antibody discovery, protein engineering, protein production, protein characterization, and automation groups in San Diego and Indianapolis. As they build expertise, there is an opportunity to take ownership of a project workstream with increasing autonomy.

Responsibilities:

Think creatively and assist in designing and performing experiments to identify and validate the next generation of large molecule therapeutics

Contribute to building and improving next-generation technology platforms for future therapeutics

Contribute to process improvement of molecular biology, screening protocols and molecule characterization

Work collaboratively and communicate with project teams to achieve critical research objectives and timelines

Maintain timely, detailed, and well-organized records, including electronic notebooks, laboratory information management systems, presentations, and reports

Basic Requirements:

Bachelor’s or Master’s degree in Biochemistry, Molecular Biology, Protein Engineering, Biotechnology, Cell Biology, or a related STEM field with a minimum of 3 years of relevant laboratory experience

Experience in protein engineering

Qualified applicants must be authorized to work in the United States on a full-time basis. Lilly will not provide support for or sponsor work authorization or visas for this role, including but not limited to F-1 CPT, F-1 OPT, F-1 STEM OPT, J-1, H-1B, TN, O-1, E-3, H-1B1, or L-1.

Additional Skills / Preferences:

Demonstrated hands-on experience with molecular biology and cloning techniques (PCR, Gibson assembly, restriction digest/ligation, site-directed mutagenesis, bacterial transformation)

Experience in antibody engineering and optimization approaches as well as in protein biochemistry

Proficient in ELISA and binding assay techniques; experience with BLI (Octet) or SPR (Biacore) is desirable

Knowledge of protein structure and structure-activity relationships

Confortable using AI tools and agile learning new software

Knowledge/experience in cell culture and cell-based functional assays

Experience working with automation platforms

Familiarity with sequence analysis tools and data visualization/statistics software (e.g., Prism, Excel, Spotfire) is a plus

Highly effective interpersonal, written, and oral communication skills

Excellent analytical and organizational skills with high attention to detail

Ability to work independently as well as in complex cross-functional team settings

Location: San Diego, CA  |  Onsite laboratory position

Eli Lilly and Company, Lilly USA, LLC and our wholly owned subsidiaries (collectively “Lilly”) are committed to help individuals with disabilities to participate in the workforce and ensure equal opportunity to compete for jobs. If you require an accommodation to submit a resume for positions at Lilly, please email Lilly Human Resources (Lilly_Recruiting_Compliance@lists.lilly.com) for further assistance. Please note this email address is intended for use only to request an accommodation as part of the application process. Any other correspondence will not receive a response.

Lilly is an EEO/Affirmative Action Employer and does not discriminate on the basis of age, race, color, religion, gender, sexual orientation, gender identity, gender expression, national origin, protected veteran status, disability or any other legally protected status.

Lilly is dedicated to helping individuals with disabilities to actively engage in the workforce, ensuring equal opportunities when vying for positions. If you require accommodation to submit a resume for a position at Lilly, please complete the accommodation request form ( https://careers.lilly.com/us/en/workplace-accommodation ) for further assistance. Please note this is for individuals to request an accommodation as part of the application process and any other correspondence will not receive a response.

Lilly is proud to be an EEO Employer and does not discriminate on the basis of age, race, color, religion, gender identity, sex, gender expression, sexual orientation, genetic information, ancestry, national origin, protected veteran status, disability, or any other legally protected status.

Our employee resource groups (ERGs) offer strong support networks for their members and are open to all employees. Our current groups include: Africa, Middle East, Central Asia (AMECA), Black Employees at Lilly (BE@Lilly), Chinese Culture Network (CCN), EnAble, Evolve, Lilly Indian Network (LIN), Organization of Latinx at Lilly (OLA), Pride (LGBTQ+ Allies), Veterans Leadership Network (VLN) and Women’s Initiative for Leading at Lilly (WILL).

Actual compensation will depend on a candidate’s education, experience, skills, and geographic location.  The anticipated wage for this position is

$88,500 - $161,700

Full-time equivalent employees also will be eligible for a company bonus (depending, in part, on company and individual performance). In addition, Lilly offers a comprehensive benefit program to eligible employees, including eligibility to participate in a company-sponsored 401(k); pension; vacation benefits; eligibility for medical, dental, vision and prescription drug benefits; flexible benefits (e.g., healthcare and/or dependent day care flexible spending accounts); life insurance and death benefits; certain time off and leave of absence benefits; and well-being benefits (e.g., employee assistance program, fitness benefits, and employee clubs and activities).Lilly reserves the right to amend, modify, or terminate its compensation and benefit programs in its sole discretion and Lilly’s compensation practices and guidelines will apply regarding the details of any promotion or transfer of Lilly employees.

#WeAreLilly

Job details

Seniority
Senior
Function
Drug Discovery & Preclinical Research
Therapeutic area
Not listed
Location
San Diego, California, United States of America
Employment type
FULL_TIME

How this role compares

Computed from every other active Drug Discovery & Preclinical Research role in our database, not just this employer's listings.

We currently track 396 comparable Senior Drug Discovery & Preclinical Research roles across 55 biopharma companies.

396Comparable roles tracked
375Currently active
55Companies hiring similar roles
21Countries represented

Salary context

182 of 396 peers report a salary range (USD, annualized)

Peers share this role's job function and a matching or adjacent seniority level -- not necessarily the same therapeutic area or country.

This roleSubject $88,500/yr – $161,700/yr
Lowest disclosed · Senior Primate Behavior Specialist · Labcorp $70,000/yr – $80,000/yr
Highest disclosed · Toxicology Senior Research Fellow · Vertex Pharmaceuticals Inc (US) $232,000/yr – $348,000/yr
Peer group range $75,000 – $290,000 (median $159,125)

Where these roles are based

Top locations among the 396 comparable roles

United States304
China14
India13
United Kingdom9
Switzerland8
Germany7

+ 15 more countries

Seniority mix

396 of 396 peers have a known seniority level

Senior215
Principal149
Associate Director32

Therapeutic area mix

40 of 396 peers have a known therapeutic area; the rest are genuinely unlabeled, not hidden

Oncology16
Immunology10
Neuroscience9
Cardiovascular / CVRM4
Vaccines & Infectious Disease1

Similar opportunities

The closest matches from our peer group, ranked by how similar they are, not how well you'd qualify for them -- treat this as market context, not a guaranteed shortlist; a weak match is labeled as one below.

60%similar
Pharmacia & Upjohn Company Groton, United States Senior
Same function Same seniority Same country
60%similar
Pharmacia & Upjohn Company Groton, United States Senior
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60%similar
AbbVie North Chicago, IL Senior
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60%similar
Gilead Sciences, Inc. Foster City, United States Senior
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60%similar
Gilead Sciences, Inc. Foster City, United States Senior
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60%similar
Amgen Inc. Thousand Oaks, United States Senior
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Notify me about similar jobs

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How we calculate "similar"

No black box, no LLM guesswork: a deterministic score built from four normalized attributes. Here's this role's own peer group at different match levels, so you can see the mechanism, not just the result.

Every comparison starts from the same 100-point budget: 25 for working in the same function, 40 for the same therapeutic area, 20 for the same or adjacent seniority, 15 for the same country. A dimension we can't confirm on both sides contributes nothing, never a guess, never a free pass.

60%
Senior Scientist Mass Spectrometrist
Pharmacia & Upjohn Company · Groton, United States · Senior
Function Therapeutic area Seniority Country
60%
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Gilead Sciences, Inc. · Foster City, United States · Senior
Function Therapeutic area Seniority Country
60%
Senior Associate Scientist, RNA Therapeutics
Regeneron Pharmaceuticals, Inc (USA) · Tarrytown, United States · Senior
Function Therapeutic area Seniority Country
60%
Senior Toxicologist
Regeneron Pharmaceuticals, Inc (USA) · Cambridge, United States · Senior
Function Therapeutic area Seniority Country
Unmatched or unknown dimensions score exactly the same: 0 points, never a partial guess. A role we know almost nothing about beyond its function bottoms out at 25%; it never inflates to 100% just because there's little to compare against. Seniority uses a defined ladder (Associate → Manager → Associate Director → Senior → Principal → Director → Senior Director → Executive/VP) so "Director" and "Senior Director" count as adjacent, but "Director" and "Executive/VP" do not.