Senior Scientist, Research Analytics (Sequencing Informatics)

San Diego, CA, US
Aug 03, 2018
Required Education
Position Type
Full time
Other Locations:US- CA- San Diego


Celgene is a global biopharmaceutical company leading the way in medical innovation to help patients live longer, better lives. Our purpose as a company is to discover and develop therapies that will change the course of human health. We value our passion for patients, quest for innovation, spirit of independence and love of challenge. With a presence in more than 70 countries, and growing - we look for talented people to grow our business, advance our science and contribute to our unique culture.

We seek a talented, collaborative computational researcher to work on the analysis and interpretation of high-dimensional cell and molecular profiling data.

As part of the Research Analytics team focused on enabling our internal NGS research capability, the successful candidate will partner with the Research Informatics & Knowledge Utilization (RIKU) computational research colleagues and biologists across Thematic Centers of Excellence (TCoEs) in Celgene's Research & Early Development (R/ED) organization to design experiments, explore new protocols, and perform leading computational research to drive insight from profiling datasets.

The successful applicant is expected to play a key scientific role leveraging innovative computational analysis strategies across a wide range of NGS based profiling scenarios to empower data-driven decisions in target and biomarker discovery within the context of drug resistance and/or patient stratification.

The position would suit an individual with exceptional NGS bioinformatics, computational biology, communication and collaboration skills.

The role offers the opportunity to directly impact the delivery of transformational therapies in key diseases of unmet medical need. Strong interest in the inter-disciplinary application of computational analysis methods to life sciences data is imperative.


Working with RIKU colleagues alongside researchers across the Celgene Research and Early Development organization, responsibilities include but are not limited to:
  • Develop and apply leading-edge computational analysis and biological interpretation approaches aligned with key Celgene scientific objectives and with focus on bulk and single-cell NGS profiling experiments.
  • Multi-disciplinary collaboration to investigate compound and disease properties, influence decision making across the early development of novel therapies, and translate pre-clinical findings to patient state.
  • Integrate data across assay platforms and transfer knowledge to impact early drug discovery and translational development programs.
  • Apply contemporary methods for genomic data processing, analysis, interpretation and visualization. Contribute to development and implementation of both established and novel NGS data processing protocols.
  • Participate in design and analysis of laboratory experiments; algorithm, platform & vendor performance evaluations; and the development of novel single-cell profiling protocols.
  • Author scientific reports, and present methods, results and conclusions to publishable standard.
  • Contribute to planning and execution of collaborative projects with leading academic and commercial research groups worldwide.

Background experience & complementary knowledge
  • Ph.D. in bioinformatics, computational biology, genetics, computer science or related discipline at a recognized higher-education establishment.
  • 6+ years relevant experience of inter-disciplinary research, applying quantitative approaches to solve biological problems in academic or biotech industry research scenarios.
  • Expertise in contemporary methods for processing, analysis, integration and visualization of NGS data, including single cell sequence data is required.
  • Demonstrated ability to infer molecular mechanisms from high-throughput profiling data generated by perturbation of in vitro , in vivo and ex vivo model systems. Track record of peer-reviewed publications in top-tier scientific journals.
  • Published evidence of next-generation sequencing data analysis: familiarity with public alignment pipelines, SNV, SV and CNV calling algorithms, common NGS manipulation and visualization tools and standardized NGS data formats (e.g. SAM/BAM, VCF).
  • Experience in computational biology research on a wide variety of cell and molecular profiling platforms, with considerable depth of experience in bulk and single-cell RNAseq data analysis, whole genome and exome data analysis and integration of protein-protein interaction data.
  • Expert in Linux, with working knowledge of Windows/MacOS. Excellent programming skills using scripting languages (e.g. Perl, Python, R/Bioconductor, Shiny and contemporary database structures), and expertise in algorithmic implementation, statistical programming and data manipulation.
  • Expert knowledge of current bioinformatics trends, public genomic tools, databases and utilities, with a focus on Next Generation Sequencing methods.
  • Experience developing and integrating data processing and analysis tools to manipulate large datasets, and working within high performance (HPC), cloud computing (AWS) and container based (docker) environments desirable.
  • Motivated, innovative and strong team player able to function with a high degree of independence. Demonstrable ability for deep and creative thinking.
  • Excellent time management and organizational skills. Excellent verbal and written communication skills. Fluent verbal and written
  • English language skills prerequisite.



Celgene is committed to equal opportunity in the terms and conditions of employment for all employees and job applicants without regard to race, color, religion, sex, sexual orientation, age, gender identity or gender expression, national origin, disability or veteran status. Celgene complies with all applicable national, state and local laws governing nondiscrimination in employment as well as employment eligibility verification requirements of the Immigration and Nationality Act. All applicants must have authorization to work for Celgene in the U.S.