Publications by authors named "Katherine M Fellows"

Highly collaborative scientists are often called on to extend their expertise to different types of projects and to expand the scope and scale of projects well beyond their previous experience. For a large-scale project involving "big data" to be successful, several different aspects of the research plan need to be developed and tested, which include but are not limited to the experimental design, sample collection, sample preparation, metadata recording, technical capability, data acquisition, approaches for data analysis, methods for integration of different data types, recruitment of additional expertise as needed to guide the project, and strategies for clear communication throughout the project. To capture this process, we describe an example project in proteogenomics that built on our collective expertise and experience.

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Article Synopsis
  • The study explores how genomic and transcriptomic changes impact the proteins expressed in lung squamous cell cancer (SCC) by analyzing data from 108 patients.
  • Three proteomic subtypes are identified: Inflamed and Redox, which together make up 87% of the tumors. The Inflamed subtype shows higher immune cell presence and PD-1 expression, while the Redox subtype is linked to specific metabolic pathways and gene alterations.
  • Although the subtypes don’t directly correlate with patient survival, the presence of B-cell-rich structures in the Inflamed subtype is linked to better survival outcomes, and the research highlights potential therapeutic targets in the Redox group related to metabolism.
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