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Scientist III, Bio-informatics
Company: Thermo Fisher Scientific
Location: Carlsbad, CA
Employment Type: Full Time
Date Posted: 11/26/2020
Expire Date: 02/18/2021
Job Categories: Advertising/Marketing/Public Relations, Computers, Software, Engineering, Information Technology, Manufacturing and Production, Sales, Science, Research & Development
Job Description
Scientist III, Bio-informatics

Position Objective

You will be:

  • Contributing to the new technology development within a multidisciplinary team of scientists focused on a single cell research
  • Developing molecular tagging and barcoding designs to uniquely identify thousands of samples
  • Designing oligos and primers to implement these designs in RT, amplification, barcoding reactions with whole transcriptomes
  • Analyzing and troubleshooting NGS data, hidden biases, read structures to support experimental optimization and development of advanced molecular tagging and to provide constructive feedback to the bench scientists
  • Developing new and customized NGS single cell analysis tools for internal R&D use and as part of customer-facing production software
  • Proactively communicating across functions, especially with cell and molecular biologists to interpret sequence results, propose additional experiments, dynamically adjust designs to support the fast-paced development work
  • Contributing to the development of customer-facing software, algorithms, visualization

Scope of Need

You will:

  • Directly interact with senior R&D leadership, software, engineers, product and project management to develop and execute project plans that support product development initiatives towards analysis of the transcriptome at the single cell level
  • Deliver on executing these plans according to a planned set of milestones, deliverables and timelines.
  • Clearly present ideas, designs, algorithms and results to both experts and non-experts in the field
  • Create intellectual property

Scientific leadership, significant independence, and strong teamwork are absolutely required.

This role may involve any of the following:

  • Assay Design: Optimizing primer designs, RT and PCR reactions, sequencing approaches
  • Sequencing Support: Developing a pipeline for assay design through analysis of RNAseq data
  • Bioinformatics: Development of data analysis algorithms and tools
  • Data Visualization: Developing “intuitive” methods for data visualization


A graduate degree in bioinformatics, physics, statistics, biological or computer sciences is a strong preference.

Direct experience with single cell data analysis is preferred.

Candidates with a bachelor’s degree and a relevant 7+ years of experience in industry will also be considered.

Knowledge, Skills, Abilities

You should have:

  • A solid knowledge of next-generation sequencing analysis with a good understanding of software engineering and data analysis principles
  • Experience with a custom NGS analysis and troubleshooting of NGS assay designs
  • Understanding of the molecular and cellular biology associated with gene expression and sequencing
  • Understanding and experience with primer design, PCR technology, and molecular barcoding methods
  • Proficiency in Python, R and Shiny, Linux shell scripting. Experience with C++ and Java is a plus
  • Background in statistics and experience with standard RNAseq libraries
  • Direct experience with single cell transcriptomic analysis is preferred
  • Strong communication skills and proficiency in scientific data presentation and visualization
  • History of successful collaborative work with molecular biologists and technology development teams


  • Required: 3+ years of experience in bioinformatics or a related field
  • Required: 2+ years of experience with next generation sequencing data analysis
  • Preferred: 1+ years of experience with single cell sequencing or other single cell techniques

Working Conditions:

  • Majority of working time will be spent designing strategies for sequence acquisition and analysis of whole transcriptomes from many single cells
  • Significant collaboration between cell and molecular biologists to test designs, analyze and interpret results and change design based on that feedback
  • Carrying out analysis of large RNAseq data sets
  • Recording activities appropriately in notebooks
  • Must be capable of observing and adhering to lab safety standards and protocols
  • Must be able to identify deviations from expected outcomes and participate in trouble-shooting those deviations and suggesting alternatives
  • Critical to success in this position will be the individual’s ability to work independently and to work as part of a high-performing team
  • Must be able to work as part of a team in the laboratory (extended R&D team) and as part of a broader cross-functional team (R&D, Project Management, Product Management, Quality, Operations, Marketing, Commercial)
Contact Information
Company Name: Thermo Fisher Scientific
Website: https://thermofisher.contacthr.com/...
Company Description:

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