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LI
Lilly

Advisor, Physicochemical Properties and Compound Quality

Salary$126k – $205k
LocationUS, Indianapolis IN
Typefull-time
SenioritySenior
Experience5+ yrs
DepartmentSmall Molecule Discovery
Company size10,000+ people
First seenOct 5, 2026 · 6d ago
Verified live1d ago
At a glanceSummarised by Seekless from the posting.
Must have2
PhD in Analytical Chemistry, Pharmaceutical Sciences, or a closely related discipline with 5+ years of post-education hands-on experience with LC-MS, SFC-MS, LC-MS/MS, and physicochemical techniques in a small molecule pharmaceutical discovery environment
Masters with 10+ years of post-education hands-on experience with LC-MS, SFC-MS, LC-MS/MS, and physicochemical techniques
Nice to have15
In-depth proven track record determining physicochemical properties and driving cross-functional impact on drug design and development
Experience working closely with ADME/DMPK and providing contextualized results taken from analytical data in early drug discovery
Well versed in analytical data/results management
Extensive hand-on experience with nominal mass and high resolution LC-MS and SFC-MS instrumentation, including method development, optimization, and troubleshooting (Agilent, Waters, Shimadzu)
Expert in the broad range physicochemical properties and their relationship to critical success factors for medicinal chemistry projects
Deep understanding of chromatography and mass spectrometry theory and proven track record for creatively applying these to the laboratory environment
Well versed in ADME/DMPK testing strategies and the role of physicochemical properties in early-stage drug discovery
Proficiency with data analysis software such as MassLynx, ChemStation, Mestrelabs or similar
Demonstrated ability to apply data/information/results workflow enablers such as KNIME and state of the art AI tools
Strong analytical and problem-solving abilities
Excellent communication skills to effectively present data to both scientific and non-scientific stakeholders
Ability to work independently while collaborating effectively with multidisciplinary teams
High attention to detail and organizational skills to manage multiple projects simultaneously
High learning ability and adaptability
Ability to challenge status quo and to influence across organizations
Skills
LC-MS
SFC-MS
LC-MS/MS
high-resolution mass spectrometry
MassLynx
ChemStation
Mestrelabs
KNIME
Agilent
Waters
Shimadzu
Benefits
401(k)
Pension
Medical
Dental
Vision
Prescription drug benefits
Flexible benefits
Life insurance
Death benefits
Vacation benefits
Leave of absence benefits
Employee assistance program
Fitness benefits
Employee clubs and activities
About the company
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.
Job Overview:
The Lilly Small Molecule Discovery (LSMD) group is an organization purpose-built to create molecules that make life better for people. We focus on using innovative science to unlock novel approaches that can treat people suffering from diseases with poor treatment options. We continually challenge ourselves to deliver molecules that can provide breakthrough efficacy with the highest possible safety margins. We are dedicated to optimizing our mindset, technology, and processes for faster, more nimble execution. Our success is built on a culture that empowers innovative problem-solving through open collaboration and individual accountability.
Advanced Molecule Design (AMD) is dedicated to optimizing molecules into strong drug candidates that become breakthrough medicines for patients. AMD brings together core functional areas — medicinal chemistry, synthetic chemistry, analytical chemistry, computational chemistry, and molecular pharmacology — to accelerate the identification and advancement of high-quality small molecule candidates across a breadth of modalities and therapeutic areas.
Discovery Chemistry Technologies (DCT), a key function within AMD, provides critical scientific expertise and technology solutions that support molecule optimization and scale-up efforts. Within DCT, the Discovery Analytical Chemistry team integrates deep expertise in analytical characterization, separation science, method development, and molecular property assessment to drive compound progression and inform critical portfolio decisions. The team generates high-quality data — spanning structural confirmation, purity determination, stability evaluation, and physicochemical profiling — that enables discovery teams to make rapid, confident decisions across the design-make-test-analyze cycle. Team members are expected to embrace collaboration, adopt a forward-thinking and growth-oriented mindset, and take individual responsibility for their scientific contributions and professional development.
Join our Lilly Small Molecule Discovery team to drive the characterization and optimization of novel drug candidates that could become tomorrow’s breakthrough therapies. We’re seeking a highly motivated Analytical Chemist with deep expertise in physicochemical property analysis, Liquid Chromatography-Mass Spectrometry (LC-MS), and Supercritical Fluid Chromatography-Mass Spectrometry (SFC-MS) to serve as an embedded analytical expert within our discovery programs.
In this role, you will work directly with medicinal chemists to provide critical analytical insights that guide synthetic strategy and compound progression decisions. Your expertise in ADME/DMPK property profiling, solubility assessment, stability analysis, and structural characterization using LC-MS, SFC-MS, LC-MS/MS, and high-resolution mass spectrometry will be essential to identifying and advancing the most promising lead candidates.
The compounds you characterize and optimize today may become the breakthrough therapies patients need tomorrow. Your analytical insights will directly influence which molecules advance from discovery into clinical development.
You will also lead the integration of purity and stability analyses with our global sample management organization to maintain our world class compound collection
Key Responsibilities:
•
Physicochemical Property Characterization:
Design and execute experiments to measure key physicochemical properties (e.g., solubility, pKa, logD/P, stability, Polar Surface Area) of new chemical entities (NCEs) and drug candidates in the early stages of discovery. These are either measured directly or via surrogate chromatographic methodology, such as SFC-MS or LC-MS. Holistic assessment of these properties in conjunction with other characterization data will guide decisions on SAR, bioavailability, future formulation, and drug delivery.
•
LC-MS Method Development & Application Assessing Critical Quality Attributes:
Develop and optimize LC-MS methods for purity, identity, and stability analysis for a variety of pharmaceutical compounds, impurities, and potential drug candidates. Ensure method sensitivity, reproducibility, robustness, and speed of analytical methods to support the discovery timelines.
•
Data Analysis & Reporting:
Process and interpret complex chromatographic and spectrometric data to generate contextualized and actionable results. Present results and conclusions to cross-functional project teams and key stakeholders to enable rapid and reliable decision making.
•
Documentation & Compliance:
Maintain accurate and detailed laboratory notebooks and reports in accordance with internal company standards. Ensure proper documentation of experimental protocols, results, and any deviations or issues.
•
Innovation & Continuous Learning:
Stay current with advancements in analytical chemistry, LC-MS techniques, and drug discovery trends. Continuously identify opportunities to enhance laboratory efficiency, improve analytical techniques, and contribute to the scientific knowledge base. Demonstrate scientific rigor to develop new and novel experiments and techniques to enable and speed up the discovery pipeline.
•
Cross-Functional:
Effectively partner with chemists, pharmaceutical formulation scientists, ADME/DMPK scientists, computational scientists, and data scientists.
Qualifications:
•
Minimum:
•
PhD in Analytical Chemistry, Pharmaceutical Sciences, or a closely related discipline with 5+ or Masters with 10+ years of post-education hands-on experience with LC-MS, SFC-MS, LC-MS/MS, and physicochemical techniques in a small molecule pharmaceutical discovery environment.
•
Preferred
Nice to have
•
In-depth proven track record determining physicochemical properties and driving cross-functional impact on drug design and development.
•
Experience working closely with ADME/DMPK and providing contextualized results taken from analytical data in early drug discovery.
•
Well versed in analytical data/results management.
•
Extensive hand-on experience with nominal mass and high resolution LC-MS and SFC-MS instrumentation, including method development, optimization, and troubleshooting (Agilent, Waters, Shimadzu.)
•
Expert in the broad range physicochemical properties and their relationship to critical success factors for medicinal chemistry projects
•
Deep understanding of chromatography and mass spectrometry theory and proven track record for creatively applying these to the laboratory environment
•
Well versed in ADME/DMPK testing strategies and the role of physicochemical properties in early-stage drug discovery.
•
Proficiency with data analysis software such as MassLynx, ChemStation, Mestrelabs or similar.
•
Demonstrated ability to apply data/information/results workflow enablers such as KNIME and state of the art AI tools.
•
Strong analytical and problem-solving abilities.
•
Excellent communication skills to effectively present data to both scientific and non-scientific stakeholders.
•
Ability to work independently while collaborating effectively with multidisciplinary teams.
•
High attention to detail and organizational skills to manage multiple projects simultaneously.
•
High learning ability and adaptability.
•
Ability to challenge status quo and to influence across organizations.
Legal
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).
Benefits
Actual compensation will depend on a candidate’s education, experience, skills, and geographic location. The anticipated wage for this position is
$126,000 - $204,600
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
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