Senior Data Scientist - Computational Biology & Machine Learning

The Computational Biology and Machine Learning (CBML) group within the Genomics & Data Science Organization at Spark Therapeutics is seeking an engaged and passionate Senior Data Scientist with expertise in AI/ML and proficiency in the analysis of Next-Generation Sequencing data. The candidate will collaborate on projects throughout the Research & Technology Organization that necessitate the application of machine learning expertise, encompassing optimization, anomaly detection, classification, cluster analysis etc…. He/she will be responsible for:

• Developing and implementing AI/ML models for data analysis, including clustering, classification, and prediction.
• Analyzing and integrating large-scale genomics and transcriptomics datasets generated from single cells.
• Working closely with cross-functional teams to design and execute experiments to validate models and algorithms.
• Engaging in cross-functional discussions, providing conceptual input in experimental and study design and serving as subject matter expert in Computational Biology and ML.
• Summarizing, visualizing, and presenting analyses and findings to key stakeholders.
• Supporting evaluation and writing of study reports, scientific presentations, and SOPs.
• Staying up to date with the latest trends and advancements in genomics, transcriptomics, and machine learning.

Responsibilities
Describe the essential daily job functions and include % of time spent on each.

% of Time

Job Function and Description

50

AI/ML and NGS analysis of scientific data including, interpretation, and communication of results and insights to stakeholders, including scientific and non-scientific audiences

25

Develop in-house computational tools and machine learning models to support analysis of high-throughput datasets

20

Generate technical reports, prepare presentation slides, generate novel concepts.

5

Trainings, lab meetings and administration work

Requirements

• Ph.D. in Computer science, Computational Biology, Bioinformatics, or related disciplines preferred with 3-5 years years’ experience.
• May also have a Bachelors or Master’s degree and significant related experience- preferred minimum of 10 years of experience. Individual experience may vary based on skillset and expertise.
• Demonstrable track record in the core competency areas: high dimensional data analysis, applying AI/ML techniques to biological datasets, data visualization, etc…
• Extensive experience in next generation sequencing (NGS) analysis of DNA and RNA-seq (Bulk/single-cell) data using short and long read sequencing technologies.

Competencies

• Deep understanding and expertise in the fields of machine learning and data science, as well as a strong foundation in statistical analysis methods and frameworks.
• Proficiency in programming using one or more common data science languages such as Python, R, SPARQL, SQL.
• Experience with machine learning libraries such as scikit-learn, TensorFlow, and Keras.
• Extensive experience using bioinformatics workflow technologies such as WDL, CWL, NextFlow, Docker.
• Understanding of genomic sequencing technologies, including Illumina and 10x Genomics.
• Familiarity with bioinformatics tools such as BWA, Samtools, BLAST, Cell Ranger, Seurat, Scanpy, etc…
• Strong familiarity with core concepts in molecular biology and related lab technologies.
• Track record of following best practices of coding, version control (Git), code documentation, and reproducible research.
• Proven ability to work independently & in a collaborative group setting.
• Self-motivated to learn and develop new methodologies, manage multiple analysis pipelines simultaneously, keep accurate records, follow instructions, and comply with company policies.
• Excellent communication skills (both oral and written).
• Experience with AAV vectors and gene therapy is preferred, but not required.
• Expert ability to critically analyze problems, develop potential solutions, and evaluate impact to Spark.
• Demonstrated ability to independently provide effective oversight and management of external collaborations and vendors.
• Experience with cloud computing platforms such as AWS, GCP, or Azure.

Please be aware that Spark mandates COVID-19 vaccination of all employees regardless of work location. Accommodations may be made in accordance with applicable law.

Nearest Major Market: Philadelphia

Join the Spark Team

We were born of innovation, springing from the curiosity, imagination and dedication of remarkable scientists and healthcare visionaries. Our shared mission is to challenge the inevitability of genetic disease by discovering, developing, and delivering treatments in ways unimaginable - until now.

We don't follow footsteps. We create the path.

Learn more about Spark Therapeutics and view other openings.