Scientist/Sr. Scientist - Bioinformatics Engineer

City Therapeutics•Cambridge, MA

2d•Onsite

About The Position

Join the City Therapeutics Data Science Team as a Scientist/Sr. Scientist, Bioinformatics Engineer, and help shape the future of drug discovery. In this role, you will work cross-functionally across Biology, Chemistry, and High-Throughput Screening teams to gather use cases, requirements, and feedback to deploy tools addressing pain-points in research informatics.

Requirements

Advanced degree in Bioinformatics, Computational Biology, Computer Science or relevant discipline with industry/pharma experience (minimum 3+ years PhD, 6+ years MS)
Experience working with next generation sequencing (NGS) data (e.g. RNAseq)
Proficiency in Python and R for data visualization and analysis
Strong knowledge of version control, the software development lifecycle framework, and reproducible code deployment (Git, Docker)
Demonstrated experience in building and managing scalable automated bioinformatics workflows in Nextflow
Experience operating and troubleshooting in AWS cloud compute environments
Strong understanding of statistics fundamentals and data analysis methods
Strong understanding of molecular biology, genetics, NGS technologies and related fields
Ability to translate complex biological problems into reproducible and robust computational approaches
Excellent problem-solving abilities, attention to detail, strong communication skills and a track record of collaborating effectively in a team-oriented, cross-functional environment

Nice To Haves

Portfolio of diverse and impactful of research informatics data products in an industry setting
Experience with data visualization and application frameworks like R Shiny, Plotly, Dash, Flask, Streamlit, etc
Experience with Benchling and Benchling-SDK
Experience in oligonucleotide therapeutics (RNAi, ASOs, etc) and/or gene editing fields
Familiarity with data lakes and/or data warehouses
Working knowledge of machine learning and its applications in genetics and drug discovery

Responsibilities

Design and deploy custom computational tools and applications for siRNA compound design, protein structure prediction, novel sequence alignment approaches, bench-to-ELN integration, and data lake querying
Establish and maintain workflows and databases for multi-omics data integration and visualization to generate novel biological insights and inform lead drug candidate selection
Build, optimize, and maintain bioinformatics pipelines to analyze and interpret transcriptomics data
Execute a data curation strategy for large volumes of raw and processed data
Maintain data in an ML-ready state to support machine learning projects; oversee deployment and retention of machine learning models and artifacts
Ensure high-quality documentation codebase, pipelines, and analyses for reproducibility and compliance