Senior Scientist, Computational Biology

Denali-Therapeutics; South San Francisco (CA); On-site; USD 147,000 - 191,000; Full time

Job summary

Denali Therapeutics seeks a PhD-level computational biologist to oversee and advance analysis of high-dimensional data, including single-cell RNA-seq, across early discovery programs in South San Francisco. The role combines hands-on analytics with strategic oversight, driving target validation and IND-enabling studies.

You will build and adapt pipelines, collaborate with scientists, and manage external partners while contributing to regulatory filings, patents, and publications with rigorous

Qualifications

• PhD required with 3+ years in industry.
• Proven track record of single-cell RNA-seq analysis.
• Experience with high-dimensional data analysis tools (R/Python, Seurat, Scanpy).

Responsibilities

• Lead analysis of high-dimensional data (bulk and single-cell/transcriptomics) across Discovery.
• Collaborate with scientists to design, analyze, and interpret experiments.
• Develop and extend computational tools and workflows; oversee external analyses as needed.
• Communicate results to cross-functional teams and contribute to publications and filings.

Skills

Single-cell RNA-seq analysis

R

Python

Oral and written communication

Education

PhD in Computational Biology / Epidemiology / Neuroscience / Statistics

Tools

Cell Ranger

CellBender

Seurat

scanpy

Git

R Markdown

Quarto

Shiny

Job description

We invite you to consider an opportunity with Denali to help achieve our goal of delivering meaningful therapeutics to patients.This role helps define the direction of computational biology efforts across Discovery and continues to adapt this strategy as needs evolve. This is a highly cross-functional role, collaborating with scientists to enable project advancement from early target validation through IND-enabling studies. This position develops tailored analytical approaches for a variety of data types and manages external partners as needed to achieve our goals. Through a combination of hands-on analysis and strategic oversight, this role has the opportunity to directly contribute to the advancement of Denali’s early-stage portfolio.Key Accountabilities / Core Job ResponsibilitiesServes as the subject matter expert for the analysis of high-dimensional data, including bulk and single-cell/-nucleus transcriptomics dataEffectively collaborates with scientists across Discovery to design, analyze, and interpret in vitro and in vivo experiments to support projects across the portfolioPerforms rigorous, reproducible analysis across transcriptomic, genomic, and other high-dimensional datasets, adapting methods to fit the specific scientific question as neededDevelops and extends internal computational tools and workflows, as well as overseeing external analysis efforts as neededOperates as a highly-independent contributor, defining analytical approaches, building solutions where none exist, and validating results with minimal oversightAble to build and adapt analysis workflows using AI-assisted approaches while critically evaluating outputs for accuracy and scientific rigorApplies best practices to code- and data-management, including workflow orchestration and version control; identifies opportunities for improvement where appropriateEffectively communicates results to cross-functional teams and contributes to regulatory filings, patents, and publicationsQualifications/SkillsPhD in a relevant field such as Computational Biology, Epidemiology, Neuroscience, Statistics, or similar with 3+ years relevant work experience in industryProven track record of analyzing single-cell/single-nucleus RNA-seq data, as evidenced by relevant publications, a deep understanding of relevant statistical methods, and experience using common software tools for analysis (e.g. Cell Ranger, CellBender, Seurat, scanpy, etc)Additional experience with other high-dimensional data types (e.g., proteomics, mass spectrometry, human genetics) is a plusExtensive experience in R or Python for analysis of high-dimensional biological dataKnowledge of version control (e.g., Git) and methods to generate analysis reports (e.g., R Markdown, Quarto). Experience building dashboards (e.g., with Shiny) is a plusTrack record of impactful research, including publications in peer-reviewed journalsStrong analytical and problem-solving skills, excellent oral and written communication skillsSalary Range: $147,000.00 to $191,000.00 . Compensation for the role will depend on a number of factors, including a candidate’s qualifications, skills, competencies, and experience. Denali offers a competitive total rewards package, which includes a 401k, healthcare coverage, ESPP and a broad range of other benefits. Learn more at https://www.denalitherapeutics.com/careersThis compensation and benefits information is based on Denali’s good faith estimate as of the date of publication and may be modified in the future.Denali is committed to its core company value of unity by creating a diverse and inclusive environment. We are proud to be an equal opportunity employer and do not discriminate against any employee or applicant for employment because of race, color, sex, age, national origin, religion, sexual orientation, gender identity and/or expression, status as a veteran, basis of disability, or any other federal, state, or local protected class.