A Curricular Bioinformatics Approach to Teaching Undergraduates to Analyze Metagenomic Datasets Using R

@article{Kruchten2020ACB,
  title={A Curricular Bioinformatics Approach to Teaching Undergraduates to Analyze Metagenomic Datasets Using R},
  author={Anne E. Kruchten},
  journal={Frontiers in Microbiology},
  year={2020},
  volume={11}
}
Biologists with bioinformatic skills will be better prepared for the job market, but relatively few biology programs require bioinformatics courses. Inclusion in the curriculum may be hindered by several barriers, including lack of faculty expertise, student resistance to computational work, and few examples in the pedagogical literature. An 8-week wet-lab and in silico research experience for undergraduates was implemented. Students performed DNA purification and metagenomics analysis to… 

Figures and Tables from this paper

Resequencing of Microbial Isolates: A Lab Module to Introduce Novices to Command-Line Bioinformatics
TLDR
This module introduces novice students to running software at the command-line, giving them exposure and familiarity with the types of tools that make up the vast majority of open-source scientific software used in contemporary biology.

References

SHOWING 1-10 OF 21 REFERENCES
The CourseSource Bioinformatics Learning Framework
TLDR
A learning framework for a bioinformatics course that is part of the CourseSource initiative, which builds on the goals of Vision and Change in Undergraduate Education by serving as a repository for tested teaching resources in a variety of different biological disciplines.
Bioinformatics core competencies for undergraduate life sciences education
TLDR
The results of a survey of biology faculty in the United States about teaching bioinformatics to undergraduate life scientists indicate strong, widespread agreement that bio informatics knowledge and skills are critical for undergraduate lifeScientists as well as considerable agreement about which skills are necessary.
The development and application of bioinformatics core competencies to improve bioinformatics training and education
TLDR
This report describes the current status of the bioinformatics core competencies and presents a series of use cases illustrating how they are being applied in diverse training contexts, with a consideration of remaining challenges and future plans.
What is bioinformatics? A proposed definition and overview of the field.
TLDR
A definition for this new field of bioinformatics is proposed and some of the research that is being pursued is reviewed, particularly in relation to transcriptional regulatory systems.
Do You Kiss Your Mother with That Mouth? An Authentic Large-Scale Undergraduate Research Experience in Mapping the Human Oral Microbiome†
TLDR
This work aimed to improve undergraduate scientific training by engaging hundreds of introductory microbiology students in an Authentic Large-Scale Undergraduate Research Experience (ALURE), which aimed to characterize the microorganisms that reside in the healthy human oral cavity—the oral microbiome.
Crowdsourced Data Indicate Widespread Multidrug Resistance in Skin Flora of Healthy Young Adults†
TLDR
The data reported here suggest that citizen science could not only provide an important educational experience for undergraduates, but potentially play a role in efforts to expand antibiotic resistance (ABR) surveillance.
Big Biological Data: Challenges and Opportunities
Advising Biology Majors about Career Choices: Resources & Information for Biology Instructors
Abstract It is essential that undergraduate biology majors are made aware of and receive guidance on career possibilities. The authors, who actively advise and teach biology majors (and future
Vision and Change in Undergraduate Biology Education: A Call to Action Presentation to Faculty for Undergraduate Neuroscience, July 2011
  • M. Ledbetter
  • Education
    Journal of undergraduate neuroscience education : JUNE : a publication of FUN, Faculty for Undergraduate Neuroscience
  • 2012
The biology of the 21st century requires a revolution in teaching that corresponds to the revolution that the discipline experienced in the last decades of the 20th century. Consensus is not a
Life Science Majors’ Math-Biology Task Values Relate to Student Characteristics and Predict the Likelihood of Taking Quantitative Biology Courses †
TLDR
Life science majors’ math-biology task values were surveyed and they reported high utility value and were more interested in using mathematics to understand biology than previously believed, and women and first-generation students reported more negative math- biology task values.
...
1
2
3
...