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Researcher / Scientist
Computational Scientist Full-time
Computational Scientist Specialized in Image Analysis
The Gnjatic lab is looking for a bright, enthusiastic, creative, and collaborative scientist or engineer who desires to move forward the field of single cell histology analysis.
Immunotherapy is transforming decades of clinical practice in cancer care. However, understanding mechanisms of antitumor activity and associated toxicity is imperative to advance cancer immunotherapy. Identifying clinically useful biomarkers is the ultimate goal. The Gnjatic Lab is a team of immunologists, technologists, clinicians, computational biologists, data specialists, and biostatisticians, with established pipelines for CyTOF, seromics, T cell assays, multiplex chromogen IHC, and scRNAseq data.
Through this comprehensive array of assays and analytical tools, our lab pursues the following three aims: a) characterize immunocompetence at baseline and assess global immune changes upon treatment, b) identify the specificity and quality of immune responses and c) automate, optimize, and integrate analyses of produced datasets to facilitate discovery of composite biomarkers with impact on clinical cancer care.
Furthermore, the Gnjatic Lab is a National Cancer Institute (NCI)-designated Cancer Immune Monitoring and Analysis Centers (CIMACs). Successful candidates will have the opportunity to collaborate with members of the CIMAC-CIDC network on over 30 NCI sponsored clinical trials. As part of the consortium aims, you will work closely with CIMAC investigators on methods development.
The successful candidate will be expected to improve, manage, maintain, and develop current pipelines for IHC (Immuno-Histo-Chemistry) and similar technologies. The candidate must excel in programing skills (python or R) and possess a deep understanding of computational methods for image analysis and dimensionality reduction. Understanding of histology and immunology is a plus, but not essential. The candidate will have the opportunity to collaborate with a multi-disciplinal team of researchers answering significant scientific questions in immunology and cancer using multi-omic approaches to advance the field.
Duties/responsibilities:
1. Implementation, maintenance, and development of a IHC imaging processing pipeline.
2. Analyze and report high dimensional data produced by IHC pipeline.
3. Collaborate with the Team in answering research questions specific to each project and helps in the development of new projects and research methodologies.
Qualifications:
• A Masters or Ph.D. degree.
• Very strong programming skills in Python, R and notebooks (jupyther and shiny).
• Experience with programing and pipeline implementation.
• Basic understanding of cellular and molecular biology (single cell sequencing technologies).
• Basic understanding of histology.
• Basic understanding of statistics.
• Advance skills in the usage of LSF systems and AWS computing.
• Motivated and capable of communicating well and contributing productively in a multidisciplinary team environment.