Utilize existing and develop in-house computational pipelines for analysis of omics datasets, with particular focus on next-generation DNA sequencing (NGS) platform for standard RNA-seq, ChIP-Seq, ATAC-seq, single-cell RNA-seq (scRNA-seq) and Hi-C. Apply bioinformatics techniques to published and unpublished data for the analysis and interpretation of omic datasets. Conduct data-mining exercises by integrating public and in-house datasets to mine for protein-protein interactions, mRNA distribution in specific brain regions, and cell type-specific transcriptional and epigenetic profiles to assist institute’s investigators elucidate novel biological pathways relevant to learning and memory and neurodegenerative diseases.
Candidates with a willingness to share their understanding of bioinformatics approaches and tools in manipulating and interpreting deep sequencing data, and provide mentorship to Institute researchers, as needed, would be a significant advantage. We prize individuals with a strong desire to collaborate and support projects on fundamental research questions in neuroscience.
• Work independently to utilize available software and pipelines to generate and analyze NGS datasets from DNA- and RNA-based experiments.
• Develop and use scripts to create and manipulate data files.
• Manage the PILM Bioinformatics server.
• Coordinate PILM bioinformatics resources and projects with existing bioinformatics community at MIT and the Broad Institute.
• Aid PILM researchers in the selection and use of computational and statistical tools relevant to their projects.
• Incorporate information from published human and mouse genome, gene expression profiles, and genome-wide association studies in the analysis and interpretation of NGS results.
• Implement solutions and novel strategies to resolve analytical problems and improve interpretation of results.
• Report project data according to established methods and timelines to PILM investigators in preparation for publication of results in peer-reviewed journals.
• Organize datasets into accepted standards (i.e., MIAME-compliant) and submit to public repository (i.e., NCBI GEO) prior to paper publication.
• Familiarity with data visualization methods (i.e., ability to package and communicate complex processed data clearly and effectively through graphical means).
• Help PILM researchers stay informed of relevant bioinformatics-related techniques via periodic refresher workshops.
- PhD in Biology, Bioinformatics or a related field with 4-5 years experience in bioinformatics.
- Strong statistical analysis background.
- Excellent organizational and analytical skills.
- Must be able to work independently and as part of a team.
- Visa sponsorship is not available.