Assistant Research Scientist (Computational Biologist)
Starting at January 01, 2016 (full time)
Dr. Aouizerat's laboratory focuses on the identification of molecular mechanisms that underlie symptoms (e.g., pain, fatigue), sequelae (e.g., lymphedema, neuropathy) and treatment (i.e., pharmacogenomics, pharmacodynamics) of common chronic diseases (e.g., cancer, HIV, nonalcoholic fatty liver disease, cardiovascular disease). Research conducted by the group includes a combination of dry (e.g., bioinformatics) and wet (e.g., molecular biology) approaches. Research topics include development of epigenomic risk profiles, leveraging publically available datasets to complement de novo cohorts, translational research (i.e., study of targets in humans and mice), genomics (i.e., array-based and sequencing-based), transcriptomics (i.e., array-based and sequencing-based), and functional analyses (e.g., wet bench experiments). The Aouizerat Laboratory works closely with another laboratory with expertise in animal and cell models to permit accelerated translation of processes of interest identified in human data.
The Computational Biologist will analyze and manipulate data generated from both internal and external sources, use, modify, or create pipelines and reporting software, and aid other scientists in the group with a variety of computational tasks. By applying a variety of software and technologies, the Computational Biologist enables the rapid, incremental analysis required to best process and interpret the large amount of data generated in a molecular epidemiology laboratory.
Duties and responsibilities
• Develop analytical pipelines for manipulating genomics datasets and interpret results appropriately to ensure accuracy and reliability of those pipelines.
• Collaborate with others in the research team, including statisticians, molecular biologists, molecular epidemiologists, genomic analysts, and other computational biologists to design studies and implement computational applications.
• Assist Dr. Aouizerat with design and conduct of research projects.
• Acquire, update and analyze data from internal (e.g., Aouizerat or affiliated laboratories, Genomic Core Facilities) or external (e.g., TCGA, UCSC Genome Browser, 1000Genomes, dbGaP) sources, document system changes, write and maintain documentation for end users. Prepare and contribute to research papers.
• Determine optimal storage environments in implementing, tuning, and monitoring systems supporting activities
• Bachelors degree in biology, chemistry or other life sciences
• Master’s in Bioinformatics or Computational Biology required, PhD preferred
• Training in biostatistics (e.g., Minor, Master’s Degree) preferred
• Experience with multiple programming languages and computational environments, including UNIX-style operating systems, command line interfaces, R, perl/python or similar, and SQL or other database software.
• Knowledge of current bioinformatics approaches and databases
• Background in statistics and quantitative data analysis, as demonstrated through previous work or academic experience.
• Experience with and knowledge of biological sciences, especially genetics and molecular biology.
• Experience with project management preferred.
Training / experience requirements
· Excellent programming skills and ability to manipulate large data sets and proficient with design and use of modern relational/non-relational databases.
· Familiarity with most basic system administration tools and processes. Experience administering CentOS/RedHat Linux (FreeBSD desired). Competence in programming in HTML, BASH, SQL, Python/Perl, and other relevant tools; experience with cluster computing.
· Perform basic and advanced analysis on data produced from next generation sequencing systems (e.g., DNA-seq, RNA-seq, metagenomics) as well as genotyping, gene expression, and DNA methylation microarrays.
· Experience with relevant bioinformatic analysis tools/best practices.
· Develop, improve, modify, and operate data analysis pipelines.
Specific competency requirements
Ability to work at a PC monitor for most of the work day
Please e-mail a cover letter and CV to firstname.lastname@example.org.
Position added: December 09, 2015