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Plant Bioinformatics Capstone
  • Level Professional
  • Duration 9 hours
  • Course by University of Toronto
  • Offered by

About

The past 15 years have been exciting ones in plant biology. Hundreds of plant genomes have been sequenced, RNA-seq has enabled transcriptome-wide expression profiling, and a proliferation of "-seq"-based methods has permitted protein-protein and protein-DNA interactions to be determined cheaply and in a high-throughput manner. These data sets in turn allow us to generate hypotheses at the click of a mouse or tap of a finger. In Plant Bioinformatics on Coursera.org, we covered 33 plant-specific online tools from genome browsers to transcriptomic data mining to promoter/network analyses and others, and in this Plant Bioinformatics Capstone we'll use these tools to hypothesize a biological role for a gene of unknown function, summarized in a written lab report. This course is part of a Plant Bioinformatics Specialization on Coursera, which introduces core bioinformatic competencies and resources, such as NCBI's Genbank, Blast, multiple sequence alignments, phylogenetics in Bioinformatic Methods I, followed by protein-protein interactions, structural bioinformatics and RNA-seq analysis in Bioinformatic Methods II, in addition to the plant-specific concepts and tools introduced in Plant Bioinformatics and the Plant Bioinformatics Capstone. This course/capstone was developed with funding from the University of Toronto's Faculty of Arts and Science Open Course Initiative Fund (OCIF) and was implemented by Eddi Esteban, Will Heikoop and Nicholas Provart. Asher Pasha programmed a gene ID randomizer.

Modules

First impressions from genomic databases

    • 1 Readings
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1 Readings

  • First impressions from genomic databases

Gene expression analysis

    • 1 Readings
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1 Readings

  • Gene expression analysis

Weekly assessment

    • 1 Assignment
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1 Assignment

  • Week 1 Quiz

Coexpression analysis

    • 1 Readings
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1 Readings

  • Coexpression analysis

Promoter analysis

    • 1 Readings
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1 Readings

  • Promoter analysis

Weekly assessment

    • 1 Assignment
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1 Assignment

  • Week 2 Quiz

Functional classification and pathway visualization

    • 1 Readings
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1 Readings

  • Functional classification and pathway visualization

Network exploration

    • 1 Readings
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1 Readings

  • Network exploration

Weekly assessment

    • 1 Assignment
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1 Assignment

  • Week 3 Quiz

Lab report draft

    • 2 Readings
    • 1 PeerReview
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1 Peer Review

  • Peer review of first draft of lab report

2 Readings

  • Example essay
  • Get a gene of unknown function...

Final copy of lab report

    • 1 PeerReview
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1 Peer Review

  • Peer review of final copy of lab report

Auto Summary

Discover the Plant Bioinformatics Capstone, an advanced course in Science & Engineering by Coursera. Guided by experts Eddi Esteban, Will Heikoop, and Nicholas Provart, this capstone challenges learners to hypothesize a biological role for unknown genes using 33 plant-specific online tools. Part of a comprehensive specialization, it builds on core bioinformatics skills and plant biology concepts. Ideal for professionals, the course spans 540 minutes and offers flexible subscription options. Perfect for those eager to delve into cutting-edge plant genomics and bioinformatics.

Nicholas James Provart
Instructor

Nicholas James Provart