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Tags: C1. Role of bioinformatics

Description

C1. Explain the role of computation and data mining in addressing hypothesis-driven and hypothesis-generating questions within the life sciences. Life sciences students should have a clear understanding of the role computing and data mining play in modern biology. Given a traditional hypothesis-driven research question, students should have ideas about what types of data and software exist that could help them answer the question quickly and efficiently. They should also appreciate that mining large datasets can generate novel hypotheses to be tested in the lab or field.

  • Compare and contrast computer-based research with wet-lab research.
  • Explain the role of computation in finding genes, detecting the function of protein domains, and inferring protein function.
  • Describe the role of various databases in identifying potential gene targets for drug development.

All Categories (1-19 of 19)

  1. Using Synthetic Biology to Teach Data Science

    26 Jun 2019 | Teaching Materials | Contributor(s):

    By Margaret S Saha1, Beteel Abu-Ageel1, Sanjana Challa1, Xiangyi Fang1, Chai Hibbert1, Anna Isler1, Elias Nafziger1, Adam Oliver1, Hanqiu Peng1, Julia Urban1, Vivian Zhu1

    College of William and Mary

    Abstract for poster on using synthetic biology to introduce students to meaningful data mining, analysis, and application to engineering novel biological constructs.

    https://qubeshub.org/qubesresources/publications/1326/?v=1

  2. Bioinformatics: Investigating Sequence Similarity - A Plant Biology Approach

    29 May 2019 | Teaching Materials | Contributor(s):

    By Ami Erickson

    This laboratory module is a modification of the original published on CourseSource with a focus on plant biology. In the final activity, students conduct a BLAST to compare histone protein...

    https://qubeshub.org/qubesresources/publications/1247/?v=1

  3. Using Undergraduate Molecular Biology Labs to Discover Targets of miRNAs in Humans

    04 Jan 2019 | Teaching Materials | Contributor(s):

    By Adam Idica1, Jordan Thompson1, Irene Munk Pedersen1, Pavan Kadandale1

    University of California, Irvine

    In this lesson, we describe an easily adaptable lab module that can be used in existing undergraduate molecular biology lab courses to conduct authentic scientific research, published in CourseSource

    https://qubeshub.org/qubesresources/publications/1007/?v=1

  4. Teaching RNAseq at Undergraduate Institutions: A tutorial and R package from the Genome Consortium for Active Teaching

    04 Jan 2019 | Teaching Materials | Contributor(s):

    By Mark Phillip Peterson1, Jacob T Malloy2, Vincent P Buonaccorsi2, James H Marden3

    1. Viterbo University 2. Juniata College 3. Pennsylvania State University

    This lesson plan was created to teach RNAseq analysis as a part of GCAT-SEEK network. It is provided here, both in finished form and with the modifiable source code, to allow flexible adaptation to...

    https://qubeshub.org/qubesresources/publications/1005/?v=1

  5. Infectious Chocolate Joy with a Side of Poissonian Statistics: An activity connecting life science students with subtle physics concepts

    04 Jan 2019 | Teaching Materials | Contributor(s):

    By Eric T. Holland1, Greg Manley1, Tamara Chiba1, Rona Ramos1, Simon Mochrie1, Jennifer Frederick1

    Yale University

    Lesson on what it means for biological processes to be Poissonian, published in CourseSource

    https://qubeshub.org/qubesresources/publications/1001/?v=1

  6. Homologous chromosomes? Exploring human sex chromosomes, sex determination and sex reversal using bioinformatics approaches

    04 Jan 2019 | Teaching Materials | Contributor(s):

    By Kelsey Metzger

    University of Minnesota, Rochester

    In this four- part guided activity, students will learn about the structure and function of human autosomal and sex chromosomes, view and interpret gene maps, and gain familiarity with basic...

    https://qubeshub.org/qubesresources/publications/1000/?v=1

  7. Bioinformatics / Neuroinformatics

    03 Jan 2019 | Teaching Materials | Contributor(s):

    By William Grisham

    University of California, Los Angeles

    This module is a computer-based introduction to bioinformatics resources. This easy-to-adopt module weaves together several important bioinformatic tools so students can grasp how each is used in...

    https://qubeshub.org/qubesresources/publications/990/?v=1

  8. Bioinformatics: An Interactive Introduction to NCBI

    03 Jan 2019 | Teaching Materials | Contributor(s):

    By Seth Bordenstein

    Marine Biological Laboratory

    Modules showing how the NCBI database classifies and organizes information on DNA sequences, evolutionary relationships, and scientific publications. And a module working to identify a nucleotide...

    https://qubeshub.org/qubesresources/publications/989/?v=1

  9. Behavioral Genetics: Investigating the genes of a complex phenotype in fruit flies

    03 Jan 2019 | Teaching Materials | Contributor(s):

    By Craig E. Stanley, Jr., Charles Hadley S. King, IV, Michelle Thornton, Rob J. Kulathinal

    Introductory genetics laboratory published as GSA Learning Resource

    https://qubeshub.org/qubesresources/publications/988/?v=1

  10. Using DNA Subway to Analyze Sequence Relationships

    28 May 2018 | Teaching Materials | Contributor(s):

    By Jason Williams1, Ray A. Enke2, Oliver Hyman2, Emily Lescak3, Sam S Donovan4, William Tapprich5, Elizabeth F Ryder6

    1. DNA Learning Center 2. The Department of Biology, James Madison University; The Center for Genome & Metagenome Studies, James Madison University 3. University of Alaska 4. University of Pittsburgh 5. University of Nebraska-Omaha 6. Worcester Polytechnic Institute

    This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.

    https://qubeshub.org/qubesresources/publications/165/?v=2

  11. RNAseq data analysis using Galaxy

    13 Nov 2017 | Teaching Materials | Contributor(s):

    By Matthew Escobar1, Sam S Donovan2, Irina Makarevitch3, Bill Morgan4, Sabrina Robertson5

    1. California State University San Marcos 2. University of Pittsburgh 3. Hamline University 4. The College of Wooster 5. North Carolina State University

    This is a bioinformatics exercise intended for use in a computer lab setting with life science majors.

    https://qubeshub.org/qubesresources/publications/118/?v=3

  12. DNA Subway Learning Resources

    18 Oct 2017 | Teaching Materials | Contributor(s):

    By Jason Williams

    DNA Learning Center

    DNA Subway is a NIBLSE Recommended resource. This is a collection of learning resources associated with DNA Subway.

    https://qubeshub.org/qubesresources/publications/164/?v=2

  13. Using DNA Subway to Analyze Sequence Relationships

    18 Oct 2017 | Teaching Materials | Contributor(s):

    By Jason Williams

    DNA Learning Center

    This is a bioinformatics exercise using DNA Subway

    https://qubeshub.org/qubesresources/publications/165/?v=1

  14. RNAseq data analysis using Galaxy

    01 Aug 2017 | Teaching Materials | Contributor(s):

    By Matthew Escobar

    California State University - San Marcos

    This is a bioinformatics exercise intended for use in a computer lab setting with life science majors.

    https://qubeshub.org/qubesresources/publications/118/?v=2

  15. RNAseq data analysis using Galaxy

    03 Jul 2017 | Teaching Materials | Contributor(s):

    By Matthew Escobar

    California State University - San Marcos

    This is a bioinformatics exercise intended for use in a computer lab setting with life science majors.

    https://qubeshub.org/qubesresources/publications/118/?v=1

  16. Wolf Sheep Predation Simulation Exercise

    05 Jun 2017 | Teaching Materials | Contributor(s):

    By Liz Ryder

    Worcester Polytechnic Institute

    This resource is an exercise to introduce students to agent-based modeling of biological systems through working with a simple existing model.

    https://qubeshub.org/qubesresources/publications/29/?v=2

  17. Exploring HIV Evolution

    05 Jun 2017 | Teaching Materials | Contributor(s):

    By Sam S Donovan1, Tony Weisstein2

    1. University of Pittsburgh 2. Truman State University

    In this activity you will study aspects of sequence evolution by working with a set of HIV sequence data from 15 different subjects (Markham, et al., 1998). You will first learn about the dataset,...

    https://qubeshub.org/qubesresources/publications/24/?v=2

  18. Exploring HIV Evolution

    05 Aug 2016 | Teaching Materials | Contributor(s):

    By Sam S Donovan1, Tony Weisstein2

    1. University of Pittsburgh 2. Truman State University

    In this activity you will study aspects of sequence evolution by working with a set of HIV sequence data from 15 different subjects (Markham, et al., 1998). You will first learn about the dataset,...

    https://qubeshub.org/qubesresources/publications/24/?v=1

  19. Wolf Sheep Predation Simulation Exercise

    03 Aug 2016 | Teaching Materials | Contributor(s):

    By Liz Ryder

    Worcester Polytechnic Institute

    This resource is an exercise to introduce students to agent-based modeling of biological systems through working with a simple existing model.

    https://qubeshub.org/qubesresources/publications/29/?v=1