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Scientific Advisor - Bioinformatician

Eli Lilly and Company
San Diego, California
Start date
Jun 19, 2023

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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 35,000 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.

Organization Overview:

At Lilly, we provide "Answers that Matter" through innovative medicines, and exceptional service that enable people to live longer, healthier, and more active lives. Lilly Biotechnology Discovery Research center (BioTDR) builds on over 25 years' expertise and has successfully launched multiple protein-based therapeutics for diabetes, pain, and autoimmunity patients. The computational science group within BioTDR strives to apply innovative computational approaches to enable next-generation biologics for unmet medical needs. With our aspiration creating innovative solutions, we know we count on world-class talents joining us on this journey.

The computational science group drives innovation by integrating bioinformatics, ML/AI and physics-based modeling into business practices, to accelerate biologics discovery with greater success. We seek a creative and collaborative bioinformatician with expertise in next-generation sequencing and immune repertoire analysis to join the group. As a core team member, you will develop novel solutions to tackle exciting problems in multidisciplinary team setting. The position requires outstanding competencies of bioinformatics within and outside the field of application, as well as deep understanding of scientific and technical principles, concepts, and techniques.


  • Design, develop and implement data processing and analytics pipeline to enable accelerated next-generation sequencing (NGS) based antibody discovery and engineering.

  • Develop and apply tools or algorithms to mine repertoire data (public and proprietary), to elucidate on key scientific inquires and to enable in silico discovery.

  • Conduct concerted data analysis to understand the connectivity across in silico and in vitro data, to deliver practical insights propelling project advancement.

  • Share and effectively communicate bioinformatics-derived perspective within project teams to design appropriate experiments and facilitate discovery and engineering strategy.

  • Contribute technical domain knowledge and expertise to suggest new insights or initiatives, partner effectively with others to translate hypotheses into actions.

  • Present strategies, approaches, results, and conclusions in static and interactive formats with visualization.

  • Actively engage in the external environment and contribute to the field through scientific publications and presentations.

This role will be embedded in Lilly’s Medicines Innovation Hub (MIH), which serves as innovative scientific unit working across all disease areas to identify and develop quality targets, hits, leads, and drug candidates.

Basic Requirements:

  • PhD in Bioinformatics, computer science, computational biology, or similar field.

  • Programming experience using Python or Java is required.

Additional Preferences:

  • 3+ years of relevant industry experience in drug discovery and development.

  • Demonstrated ability to use antibody structure and informatics for discovery or engineering.

  • Proven record in successfully deploying antibody repertoire process and analysis workflow.

  • Proficiencies in scientific Python software such as bioinformatics toolkits (Biopython); data analysis tools (numpy/scipy/sklearn/Pandas); visualization tools/libraries and dimensionality reduction and clustering algorithms.

  • Hands on experience with data aggregation, manipulation, integration, mining, and analysis.

  • Experience with version control, continuous integration/continuous delivery, packaging, deployment, Amazon Web Services, SQL, database design a plus.

  • Familiarity with molecular modeling toolkits such as CCG MOE or Schrodinger PyMOL is a plus.

  • Experience on building and using machine learning models.

  • A passion for creating great quality, re-usable, documented, and tested code.

  • A self-motivated worker who can take ownership of core bioinformatic operations.

  • Ability to dig deeply through various data types; demonstrated experience in pinpointing resolving incongruities between tools/framework.

  • Excellent written and oral communication skills, including an ability to explain complex ideas to computational scientists, experimentalists, and protein engineers.

  • Strong collaborative skills and ability to work with a multi-functional team.

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.

As a condition of employment with Eli Lilly and Company and its subsidiaries in the United States and Puerto Rico, you must be fully COVID-19 vaccinated and provide proof of vaccination satisfactory to the company (subject to applicable law). 



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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