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Gene Expression and Data Analysis Pipeline Using Cancer BioPortal in the Classroom
oleh: Chassidy Barnes, Blake Johnson, Stefanie West Leacock, Ruben Ceballos, Lori Hensley, Nathan Reyna
Format: | Article |
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Diterbitkan: | American Society for Microbiology 2021-03-01 |
Deskripsi
Cancer BioPortal is an open-access collective cancer research resource for storing and exploring clinical, genomic, proteomic, and transcriptomic data. cBioPortal eliminates the computational barrier of interpreting complex genomic data by providing easily understandable visualizations that can be interpreted and translated into relevant biological insights. Since no prior computational knowledge is required, cBioPortal is an ideal educational tool for either in-person or distance learning environments. We have developed a pedagogical approach, video tutorials, and data analysis workflows centered on using cBioPortal. Pedagogically, students develop an initial research outline that is continually updated and graded throughout the project. Progress during the project or course is assessed by a series of student presentations, five to fifteen minutes in length, aimed at explaining: the approach used in data acquisition, interpretation of the data, and relevance to the initial hypothesis. While cancer-specific, this analysis platform appeals to a wide range of classes and student interest. Further, the project has been successfully done both as an independent research experience or as part of a virtual class-based research project.