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Scientific Lead, Analytical and Mass-Spectrometry Large Molecule Discovery

Eli Lilly and Company
San Francisco, California
Start date
Apr 24, 2024

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Job Details

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. We give our best effort to our work, and we put people first. We’re looking for people who are determined to make life better for people around the world.

Loxo@Lilly aims to create medicines that make life better for all those affected by cancer around the world. Bringing together the focus and spirit of a biotech with the scale, resources, and heritage of Lilly, our team is focused on rapidly delivering impactful new medicines for people with cancer. Our approach centers on creating oncology medicines that unequivocally show early signs of clinical activity and will matter to patients.  We intend to curate a balanced pipeline of medicines, either internally or externally discovered, with the potential to treat cancer with dramatic effect.  Loxo@Lilly was created in December 2019, combining the Lilly Oncology organization and Loxo Oncology, which was acquired by Lilly in early 2019.  Loxo@Lilly is a global organization with team members in Louisville, Colorado; Indianapolis, Indiana; New York City, New York; San Diego, California; South San Francisco, California; Stamford, Connecticut; and Madrid, Spain.

Position Summary:

This position will play an important role in supporting a team of scientists in the Protein Science & Engineering team within Loxo@Lilly’s Large Molecule Discovery group.

This position is 100% onsite at our South San Francisco location and will support sample processing, analysis of complex samples by LC-MS and other analytical strategies to propel our large molecule discovery efforts. The role is lab focused but will have the opportunity to interact with project teams regarding data generated. The role requires a clear understanding of strategies laid out for the Loxo@Lilly Large Molecule Discovery team’s implementation of strategies in the context of supporting bioanalytical and mass-spectrometry functions. This includes performing characterizations of antibody and ADC candidate molecules (routine QC, developability assessments, and peptide mapping). Past experience with bottom-up and intact MS workflows and other discovery-related characterization is desired. Additionally, this role supports pre-clinical in-vivo/pharmacokinetic studies utilizing bioanalytical techniques. Excellent organizational and benchtop skills will be required to process samples and perform small molecule mass-spectrometry for BioA/PK analysis. Thorough understanding of mass spectrometry workflows and the ability to troubleshoot/optimize instrumentation and sample processing workflows is critical.

Roles and Responsibilities of the Position:

  • Perform sample prep on and support the overall development, optimization, and execution of analytical assays for protein characterization and bioanalysis.
  • Support BioAnalysis sample preparation from complex matrixes (plasma/tissue) for mass spectrometry-based ligand binding assays.
  • Flexibility in supporting and participating in new projects and contributing to changing deadlines.
  • Prepare and analyze antibody/ADC samples for routine testing on analytical instruments such as RP-HPLC, SEC, LCMS (High Resolution and QQQ)
  • Advance the LCMS and analytical capabilities of lab to gain insights into ADC designs and mechanisms of action   
  • Collaborate with the team to meet timelines and deliverables.
  • Perform general lab maintenance and instrument calibrations.
  • Maintain a high level of productivity in a laboratory setting.

Required Qualifications:


  • A BSc and >8 years or MSc and >5 years of directly relevant experience with LC-MS in a drug development setting, or a PhD in a relevant scientific discipline (level commensurate with education and experience)
  • Prior hands-on experience generating and interpreting LC-MS data to support large molecule drug programs is essential.
  • High level of proficiency of Excel or prism, is required
  • Excellent communication and interpersonal skills with strong organizational abilities
  • Experience troubleshooting, maintaining of mass spectrometers and LC
  • Proven track record in conceiving and implementing creative LCMS and other analytical solutions in the lab to advance the understanding of drug mechanism of action or developability  

Ideal candidate will also have:

  • Extensive hands on experience operating and maintaining Sciex 7500 Qtrap, Orbitrap, or other MS instruments.
  • Previous work with antibodies, ADCs and other biotherapeutics and/or small molecule drugs  
  • Additional hands-on experience using analytical characterization such as SEC/HIC, U/HPLC, cIEF, CE, LC-MS, and cLIF is a plus
  • Prior experience working with high capacity/throughput analysis of plasma and other samples is a plus
  • Experience with high throughput plate-based assays (Working with automation is a plus)
  • Experience developing and validating assays using LCMS targeted MS or proteomics techniques
  • Experience analyzing and interpreting and reporting analytical data, along with sharing and presenting data to collaborators.
  • Experience with and/or a deep understanding of PK and BioAnalysis of small molecule drugs or ADC biologic drugs
  • Experience with R for data visualization is a plus.
  • Demonstrated can-do attitude. Looking for someone that brings innovative ideas to challenging projects in a fast-paced, collaborative, and cross-functional organization

Loxo@Lilly (Eli Lilly and Company) currently anticipates that the base salary for this position could range from between $104,250-195,800 and will depend, in part, on the successful candidate’s qualifications for the role, including education and experience. Full-time equivalent employees also will be eligible for a company bonus (depending, in part, on company and individual performance). In addition, Loxo@Lilly (Eli Lilly and Company)  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).Of course, the compensation described above is subject to change and could be higher or lower than the range described above. Further, Loxo@Lilly (Eli Lilly and Company) reserves the right to amend, modify, or terminate its compensation and benefit programs in its sole discretion and Loxo@Lilly (Eli Lilly and Company) compensation practices and guidelines will apply regarding the details of any promotion or transfer of Loxo@Lilly (Eli Lilly and Company) employees.

Physical Demands/Travel:

The physical demands of this job are consistent with a lab environment.   

The physical demands here are representative of those that must be met by an employee to successfully perform the essential functions of this job.

Work Environment:

This position’s work environment is in a Laboratory.  

The work environment characteristics described here are representative of those an employee encounters while performing the essential functions of this job.

*To perform this job successfully, an individual must be able to perform the role and responsibilities satisfactorily. The requirements listed above are representative of the knowledge, skill, and/or ability required. Reasonable accommodations may be made to enable individuals with disabilities to perform the essential functions.

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 ( ) 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.

Our employee resource groups (ERGs) offer strong support networks for their members and help our company develop talented individuals for future leadership roles. Our current groups include: Africa, Middle East, Central Asia Network, African American Network, Chinese Culture Network, Early Career Professionals, Japanese International Leadership Network (JILN), Lilly India Network, Organization of Latinos at Lilly, PRIDE (LGBTQ + Allies), Veterans Leadership Network, Women’s Network, Working and Living with Disabilities. Learn more about all of our groups.



Science has been our calling from the beginning. Colonel Eli Lilly founded the company in 1876 and charged employees to “take what you find here and make it better and better.” More than 147 years later, we remain committed to his vision through every aspect of our business and the people we serve, starting with discovering the best treatments for those who take our medicines and extending to health care professionals, employees and the communities in which we live. Moreover, you can also count on the team at Lilly to be incredibly civic-minded, supporting our communities through philanthropy, volunteerism, and a creative and innovative can-do spirit. 

Company info
893 S Delaware St
United States

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