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ERN: Emerging Researchers National Conference in STEM

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Setting up a Bioinformatics Platform for Reproducible and Robust Investigations of Microbial Mutations

Undergraduate #46
Discipline: Biological Sciences
Subcategory: Cell and Molecular Biology

Kamaria A. Bush - North Carolina Agricultural and Technical State University


The diagnosis of microbial lineages from genomic and metagenomic data has been an active and worldwide area of development. We are developing a well-calibrated approach to integrating software tools with GALAXY. These software tools include Breseq and Metaphlan. The GALAXY bioinformatics environment provides for saving and reutilization of both datasets as well as the steps and parameters of assoociated workflows for analysis. Our case study has been to investigate short read data of DNA sequences generated from three different strains of bacteria, and build a workflow in GALAXY that can evaluate for the likely type of bacteria associated with the data and guide the identification and interpretation of likely mutations. This effort is guiding objectives in analysis, training, and implementation within the bioinformatics infrastructure of our university.

Not Submitted

Funder Acknowledgement(s): HBCU-UP ACE Data Science and Analytics (DSA) Program

Faculty Advisor: Scott H. Harrison, scotth@ncat.edu

Role: Analyzing the strains for mutation patterns, using Breseq. Created a workflow using GALAXY. Identify the strains of the bacteria with MetaPhlAn.

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This material is based upon work supported by the National Science Foundation (NSF) under Grant No. DUE-1930047. Any opinions, findings, interpretations, conclusions or recommendations expressed in this material are those of its authors and do not represent the views of the AAAS Board of Directors, the Council of AAAS, AAAS’ membership or the National Science Foundation.

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