Job Description Job Description At Vertex, we invest in scientific innovation to create transformative medicines for people with serious diseases. Our growing Molecular Profiling team is seeking a Senior Scientist, Flow Cytometry to provide deep technical expertise in flow cytometry and cellular profiling to support discovery, translational, and development programs. This role will lead and drive the generation of high-dimensional insights into cell phenotype, function, and biology that help inform mechanism of action, biomarker strategies, patient stratification, and program decision-making. The successful candidate will independently own cytometry workstreams across multiple programs and contribute to the scientific direction of molecular profiling efforts. The ideal candidate is a highly motivated scientist with strong experience in multiparameter and high-dimensional flow cytometry (spectral flow), cell sorting, and immunophenotyping and a proven ability to thrive in a collaborative, fast-paced research environment. Key
Duties
and
Responsibilities
Design, develop, optimize, and execute flow cytometry-based assays to support research and translational objectives across discovery and development programs Lead multicolor immunophenotyping panel design, including marker selection, fluorochrome strategy, controls, and advanced gating and data analysis approaches Apply flow cytometry in conjunction with molecular profiling data to enable deeper characterization of cell states, pathway activity, target engagement, and disease-relevant biology Partner with cross-functional teams to integrate cellular and molecular datasets, including transcriptomic, proteomic, and biomarker data, to support hypothesis generation and program strategy Analyze and interpret complex flow cytometry data to support actionable biological insights, mechanism of action studies, and translational hypotheses Establish and apply best practices for sample preparation, staining, acquisition, compensation, quality control, and data analysis Troubleshoot technical issues and drive continuous improvement in assay robustness, reproducibility, and efficiency Contribute to experimental design, study planning, and strategic program discussions and decision-making Prepare technical documentation, protocols, study summaries, and presentations Evaluate and implement emerging cytometry and profiling technologies, reagents, and workflows where appropriate Mentor junior team members and serve as a scientific resource within the broader organization Independently lead cytometry workstreams across multiple programs, ensuring alignment with program goals and timelines Influence program decisions through data-driven insights and clear communication of complex biological findings Knowledge and Skills Deep expertise in flow cytometry principles, instrumentation, and assay development Strong understanding of immune profiling, cellular phenotyping, and molecular profiling strategies
Experience
connecting cell-based phenotypic data with broader molecular signatures and translational biomarkers
Experience
designing and optimizing high-parameter or multicolor flow cytometry panels, including intracellular and phospho-flow analysis Proficiency in flow cytometry analysis software such as FlowJo, Dotmatics or equivalent Working knowledge of data analysis approaches and familiarity with R or Python-based workflows (preferred) Strong scientific reasoning, data interpretation, and problem-solving skills Ability to communicate complex technical findings clearly to technical and cross-functional stakeholders Strong organizational skills and the ability to manage multiple priorities in a matrixed environment Demonstrated ability to operate with a high degree of independence while contributing to team-based goals
Education
and
Experience
PhD in Immunology, Cell Biology, Molecular Biology, Biology, Biomedical Sciences, or related discipline with 2+ years of relevant experience; or Master’s degree with 6+ years of relevant experience; or Bachelor’s degree with 8+ years of relevant experience
Preferred Qualifications
Experience
with primary human samples, including blood- or tissue-derived specimens Familiarity with spectral flow cytometry and cell sorting (BD, Cytek, Sony platforms)
Experience
working in environments where molecular profiling and cell-based assays are jointly used to answer translational questions
Experience
in immunology and inflammation disease areas
Experience
supporting translational research, biomarker strategies, or clinical development
Experience
integrating cytometry data with single-cell genomics, spatial transcriptomics, or proteomics datasets
Pay Range
$124,200 - $186,400 Disclosure Statement: The range provided is based on what we believe is a reasonable estimate for the base salary pay range for this job at the time of posting. This role is eligible for an annual bonus and annual equity awards. Some roles may also be eligible for overtime pay, in accordance with federal and state requirements. Actual base salary pay will be based on a number of factors, including skills, competencies, experience, and other job-related factors permitted by law. At Vertex, our Total Rewards offerings also include inclusive market-leading benefits to meet our employees wherever they are in their career, financial, family and wellbeing journey while providing flexibility and resources to support their growth and aspirations. From medical, dental and vision benefits to generous paid time off (including a week-long company shutdown in the Summer and the Winter), educational assistance programs including student loan repayment, a generous commuting subsidy, matching charitable donations, 401(k) and so much more. Flex Designation: On-Site Designated Flex Eligibility Status: In this On-Site designated role, you will work five days per week on-site with ad hoc flexibility. Note: The Flex status for this position is subject to Vertex’s Policy on Flex @ Vertex Program and may be changed at any time. #LI-Onsite Company Information Vertex is a global biotechnology company that invests in scientific innovation. Vertex is committed to equal employment opportunity and non-discrimination for all employees and qualified applicants without regard to a person's race, color, sex, gender identity or expression, age, religion, national origin, ancestry, ethnicity, disability, veteran status, genetic information, sexual orientation, marital status, or any characteristic protected under applicable law. Vertex is an E-Verify Employer in the United States. Vertex will make reasonable accommodations for qualified individuals with known disabilities, in accordance with applicable law. Any applicant requiring an accommodation in connection with the hiring process and/or to perform the essential functions of the position for which the applicant has applied should make a request to the recruiter or hiring manager, or contact Talent Acquisition at ApplicationAssistance@vrtx.com Help Us Achieve Our Mission Vertex is a global biotechnology company that invests in scientific innovation to create transformative medicines for people with serious diseases. The company has approved medicines that treat the underlying causes of multiple chronic, life-shortening genetic diseases — cystic fibrosis, sickle cell disease and transfusion-dependent beta thalassemia — and continues to advance clinical and research programs in these diseases. Vertex also has a robust clinical pipeline of investigational therapies across a range of modalities in other serious diseases where it has deep insight into causal human biology, including APOL1-mediated kidney disease, acute and neuropathic pain, type 1 diabetes, myotonic dystrophy type 1 and alpha-1 antitrypsin deficiency . Founded in 1989 in Cambridge, Mass., Vertex's global headquarters is now located in Boston's Innovation District and its international headquarters is in London. Additionally, the company has research and development sites and commercial offices in North America, Europe, Australia, Latin America and the Middle East. Vertex is consistently recognized as one of the industry's top places to work, including 14 consecutive years on Science magazine's Top Employers list and one of Fortune’s 100 Best Companies to Work For. For company updates and to learn more about Vertex's history of innovation, visit www.vrtx.com or follow us on Facebook, Twitter/X , LinkedIn, YouTube and Instagram. The diversity and authenticity of our people is part of what makes Vertex unique, and we recognize that each employee brings diverse perspectives and strengths. By embracing those strengths and celebrating differences, we are fostering an inclusive culture where each of us can bring our authentic selves to work, inspire innovation together, and change people’s lives. Our vision is clear: to be the place where an authentic, diverse mix of talent want to come, to stay, and do their best work.