Job Title: Bioinformatics Scientist III

Location: Cambridge, MA
Department: Data and Genome Sciences
Group: Precision Genetics
Type: Onsite Contract
Duration: 24 Months

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Position Summary:

The Precision Genetics group within the Data and Genome Sciences Department is seeking an experienced Bioinformatics Scientist (Contractor) to join their Computational Precision Immunology team. The ideal candidate will be a data scientist with strong expertise in multi-modal and multi-scale data analysis, particularly in multi-omics research. This role supports cutting-edge discovery and development efforts in precision medicine.

Key Responsibilities:
• Data Ingestion: Query external databases to acquire relevant multi-omics datasets (e.g., PubMed, Gene Expression Omnibus, ArrayExpress, gnomAD, GTEx, Ensembl).
• RNA-seq Analysis: Perform quality control (QC) and analysis of bulk and single-cell RNA-seq data using state-of-the-art methods (e.g., FastQC, STAR, Limma, DESeq2, clusterProfiler, Seurat, scanpy, LeafCutter).
• Multi-Omics Analysis: Analyze diverse molecular data types including spatial transcriptomics (e.g., Slide-seq, MERFISH, squidpy) and proteomics (e.g., OLINK, mass spectrometry-based approaches).
• Data Integration: Integrate multi-omics datasets, including gene/protein expression, mRNA splicing, spatial transcriptomics, and genotype data.
• Documentation: Prepare detailed documentation of analysis methods and results in a timely manner.

Quals--
Required Qualifications:
• Ph.D. in Computational Biology or a related field.
• A proven track record of over 5 years in multi-omics analysis.
• Fundamental understanding of statistical methods and multi-omics data analysis and integration (e.g., RNA-Seq, single-cell RNA-Seq, genotype, spatial transcriptomics, OLINK).
• Proficiency in R, Python, and Bash, with the ability to establish best practices for reproducible data analyses.
• Experience with high-performance computing (HPC) systems and AWS Cloud Computing (e.g., IAM, S3 buckets).
• A collaborative and self-motivated individual with a strong work ethic, capable of managing multiple objectives in a dynamic environment and adapting to changing priorities.
• Excellent written and verbal communication skills.

Preferred Qualifications:
• Experience in processing and analyzing real-world data.
• Familiarity with spatial transcriptomics analysis.
• Knowledge of statistical and population genetics principles.

Note:
• Onsite role at Cambridge, MA.
• Do not submit candidates who are looking for remote.
• Do not submit candidates with just BS/MS.

Key Skills:
• Required expertise with multi-omics data analysis and integration (e.g., RNA-Seq, single-cell RNA-Seq.
• Transcriptomics analysis.
• Proficiency in R and Bash.
• High-performance computing (HPC) systems and AWS Cloud Computing (e.g., IAM, S3 buckets).