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Bioinformatic Methods I
  • Level Foundation
  • Duration 20 hours
  • Course by University of Toronto
  • Offered by

About

Large-scale biology projects such as the sequencing of the human genome and gene expression surveys using RNA-seq, microarrays and other technologies have created a wealth of data for biologists. However, the challenge facing scientists is analyzing and even accessing these data to extract useful information pertaining to the system being studied. This course focuses on employing existing bioinformatic resources " mainly web-based programs and databases " to access the wealth of data to answer questions relevant to the average biologist, and is highly hands-on. Topics covered include multiple sequence alignments, phylogenetics, gene expression data analysis, and protein interaction networks, in two separate parts. The first part, Bioinformatic Methods I (this one), deals with databases, Blast, multiple sequence alignments, phylogenetics, selection analysis and metagenomics. The second part, Bioinformatic Methods II, covers motif searching, protein-protein interactions, structural bioinformatics, gene expression data analysis, and cis-element predictions. This pair of courses is useful to any student considering graduate school in the biological sciences, as well as students considering molecular medicine. Both provide an overview of the many different bioinformatic tools that are out there. These courses are based on one taught at the University of Toronto to upper-level undergraduates who have some understanding of basic molecular biology. No programming is required for this course. Bioinformatic Methods I is regularly updated, and was completely updated for January 2023.

Modules

NCBI/Blast I

    • 2 Videos
    • 3 Readings
Show info about module content

2 Videos

  • Introduction
  • Lecture

3 Readings

  • Acknowledgements
  • Course Logistics
  • Lecture Materials

Lab and Summary

    • 2 Videos
    • 1 Readings
    • 1 Assignment
Show info about module content

1 Assignment

  • Lab 1 Quiz

2 Videos

  • Lab Discussion
  • Summary

1 Readings

  • Lab 1 -- Exploring NCBI

Blast II/Comparative Genomics

    • 2 Videos
    • 1 Readings
Show info about module content

2 Videos

  • Introduction
  • Lecture

1 Readings

  • Lecture Materials

Lab and Summary

    • 2 Videos
    • 1 Readings
    • 1 Assignment
Show info about module content

1 Assignment

  • Lab 2 Quiz

2 Videos

  • Lab Discussion
  • Summary

1 Readings

  • Lab 2 -- Advanced Blast and Comparative Genomics

Multiple Sequence Alignments

    • 2 Videos
    • 1 Readings
Show info about module content

2 Videos

  • Introduction
  • Lecture

1 Readings

  • Lecture Materials

Lab and Summary

    • 2 Videos
    • 1 Readings
    • 1 Assignment
Show info about module content

1 Assignment

  • Lab 3 Quiz

2 Videos

  • Lab Discussion
  • Summary

1 Readings

  • Lab 3 -- Multiple Sequence Alignment

Review

    • 1 Assignment
Show info about module content

1 Assignment

  • Quiz: Modules 1-3

Phylogenetics

    • 2 Videos
    • 1 Readings
Show info about module content

2 Videos

  • Introduction
  • Lecture

1 Readings

  • Lecture Materials

Lab and Summary

    • 2 Videos
    • 1 Readings
    • 1 Assignment
Show info about module content

1 Assignment

  • Lab 4 Quiz

2 Videos

  • Lab Discussion
  • Summary

1 Readings

  • Lab 4 -- Phylogenetics

Selection Analysis

    • 2 Videos
    • 1 Readings
Show info about module content

2 Videos

  • Introduction
  • Lecture

1 Readings

  • Lecture Materials

Lab and Summary

    • 2 Videos
    • 1 Readings
    • 1 Assignment
Show info about module content

1 Assignment

  • Lab 5 Quiz

2 Videos

  • Lab Discussion
  • Summary

1 Readings

  • Lab 5 -- Selection Analysis

'Next Gen' Sequence Analysis (RNA-Seq) / Metagenomics

    • 2 Videos
    • 1 Readings
Show info about module content

2 Videos

  • Introduction
  • Lecture

1 Readings

  • Lecture Materials

Lab and Summary

    • 2 Videos
    • 1 Readings
    • 1 Assignment
Show info about module content

1 Assignment

  • Lab 6 Quiz

2 Videos

  • Lab Discussion
  • Summary

1 Readings

  • Lab 6 -- Next Generation Sequencing Applications: RNA-Seq and Metagenomics

Review

    • 1 Readings
    • 2 Assignment
Show info about module content

2 Assignment

  • Review: Modules 5-7
  • Final Assignment

1 Readings

  • Final Assignment Instructions

Auto Summary

"Bioinformatic Methods I" is a foundational course in Science & Engineering, taught by experts from the University of Toronto. It focuses on utilizing web-based bioinformatic tools and databases to analyze large-scale biological data. Key topics include databases, Blast, sequence alignments, phylogenetics, and metagenomics. Designed for upper-level undergraduates with basic molecular biology knowledge, this hands-on course does not require programming skills. The 1200-minute course is ideal for students aiming for graduate studies in biological sciences or molecular medicine. Subscription options are available through Coursera.

Nicholas James Provart
Instructor

Nicholas James Provart