Bioinformatician

The Bioinformatician will report to Ayan Paul, Research Scientist at EAI, and collaborate with Scientists and Clinicians from Peter Castaldi’s group at the Harvard Medical School, John Platig’s Network Biology group at the University of Virginia, and Jennifer Dy’s group at ECE, Northeastern University. Responsibilities will include building an ETL pipeline for ENCODE genomics data, writing Python code for data analysis, and a downstream R pipeline for post-processing data using standard Bioinformatics libraries from Bioconductor. There will be opportunities to participate in building machine learning models, co-author publications, and contribute to grant proposals. Tentative start date: January 2024 for the Spring 2024 semester with possibilities of renewal. This work will contribute towards the understanding of genetic origins of complex diseases like Chronic Obstructive Pulmonary Disease and cutting-edge machine learning-based methodologies for regulation of mRNA splicing.

RESPONSIBILITIES INCLUDE:

• Building ETL pipelines for genomics/transcriptomics data from public databases and processing them with publicly available codes in python and R.

• Documenting the entire process and all the codes generated and maintaining structured and regular commits in a GitHub repository.

• Helped implement machine learning models and automate the processing of input data.

• Write reports/prepare slide decks describing work performed.

• Contribute to scientific manuscripts and grant proposals where appropriate.

MINIMUM QUALIFICATIONS:

• A Master's degree (or equivalent)

• A minimum of 3-4 years of experience working with data pipelines and data analysis.

• Proficiency in Python and R. Experience working in Unix OS and remote computing clusters.

• Have demonstrable expertise in bioinformatics, especially genomics, transcriptomics, proteomics and/or metabolomics, and have a good grasp of statistics.

• Experience working with genomics databases like ENCODE and familiarity with RNA-seq, eCLIP, and other data is highly desirable but not required.

• An ability to write clean and well-documented code and work with GitHub repositories.