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Experimental Methods in Systems Biology
  • Level Foundation
  • المدة 18 ساعات hours
  • الطبع بواسطة Icahn School of Medicine at Mount Sinai
  • Offered by

عن

Learn about the technologies underlying experimentation used in systems biology, with particular focus on RNA sequencing, mass spec-based proteomics, flow/mass cytometry and live-cell imaging. A key driver of the systems biology field is the technology allowing us to delve deeper and wider into how cells respond to experimental perturbations. This in turns allows us to build more detailed quantitative models of cellular function, which can give important insight into applications ranging from biotechnology to human disease. This course gives a broad overview of a variety of current experimental techniques used in modern systems biology, with focus on obtaining the quantitative data needed for computational modeling purposes in downstream analyses. We dive deeply into four technologies in particular, mRNA sequencing, mass spectrometry-based proteomics, flow/mass cytometry, and live-cell imaging. These techniques are often used in systems biology and range from genome-wide coverage to single molecule coverage, millions of cells to single cells, and single time points to frequently sampled time courses. We present not only the theoretical background upon which these technologies work, but also enter real wet lab environments to provide instruction on how these techniques are performed in practice, and how resultant data are analyzed for quality and content.

الوحدات

Scope and Overview

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 1 -Scope and Overview

1 Readings

  • Lecture Slides

Biological Model Systems

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 2 - Biological Model Systems

1 Readings

  • Lecture Slides

Experimental Perturbations

    • 1 Videos
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1 Videos

  • Lecture 3 - Experimental Perturbations

1 Readings

  • Lecture Slide

Measuring Nucleic Acids

    • 1 Videos
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1 Videos

  • Lecture 4 - Measuring Nucleic Acids

1 Readings

  • Lecture Slides

Measuring Protein and Protein States

    • 1 Videos
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1 Videos

  • Lecture 5 - Measuring Protein and Protein States

1 Readings

  • Lecture Slides

Quiz

    • 1 Assignment
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1 Assignment

  • Quiz 1

Readings

    • 1 Readings
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1 Readings

  • Reading List

History of Sequencing and 2nd and 3rd Generation Sequencing

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 1 - History of Sequencing
  • Lecture 2 - 2nd and 3rd Generation Sequencing

1 Readings

  • Lecture Slides

Illumina-Based mRNA Sequencing

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 3 - Illumina-Based mRNA Sequencing

1 Readings

  • Lecture Slides

Lab-Based Video

    • 1 Videos
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1 Videos

  • Lecture 4 - Lab-Based Video

mRNA Sequencing Data Analysis

    • 1 Videos
    • 1 Readings
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1 Videos

  • Lecture 5 - mRNA Sequencing Data Analysis

1 Readings

  • Lecture Slides

Quiz

    • 1 Assignment
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1 Assignment

  • Quiz 2

Readings

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1 Readings

  • Reading List

Basics of Mass Spectrometry

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 1 - Basics of Mass Spectrometry 1
  • Lecture 2 - Basics of Mass Spectrometry 2

1 Readings

  • Lecture Slides

Quantification in Proteomics

    • 1 Videos
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1 Videos

  • Lecture 3 - Quantification in Proteomics

1 Readings

  • Lecture Slides

Lab-Based Video - Proteomics

    • 3 Videos
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3 Videos

  • Lecture 4 - Lab-Based Video - Proteomics Day 1
  • Lecture 5 - Lab-Based Video - Proteomics Day 2
  • Lecture 6 - Lab-Based Video - Analysis

Quiz

    • 1 Assignment
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1 Assignment

  • Quiz 3

Readings

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1 Readings

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Midterm Exam

    • 1 Assignment
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1 Assignment

  • Midterm Exam

Flow Cytometry

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 1 - Flow Cytometry 1
  • Lecture 2 - Flow Cytometry 2

1 Readings

  • Lecture Slides

Mass Cytometry

    • 1 Videos
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1 Videos

  • Lecture 3 - Mass Cytometry

1 Readings

  • Lecture Slides

Cytometry Data Analysis

    • 1 Videos
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1 Videos

  • Lecture 4 - Cytometry Data Analysis

1 Readings

  • Lecture Slides

Lab-Based Video - Flow Cytometry

    • 2 Videos
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2 Videos

  • Lecture 5 - Lab-Based Video - Flow Cytometry - Acquisition
  • Lecture 6 - Lab-Based Video - Flow Cytometry - Analysis

Lab-Based Video - Mass Cytometry

    • 1 Videos
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1 Videos

  • Lecture 7 - Lab-Based Video - Mass Cytometry

Quiz

    • 1 Assignment
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1 Assignment

  • Quiz 4

Readings

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1 Readings

  • Reading List

Fluorescence Microscopy and Types of Imaging

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 1 - Fluorescence Microscopy
  • Lecture 2 - Types of Imaging

1 Readings

  • Lecture Slides

Visualizing Molecules in Living Cells: Fluorescent Tools

    • 1 Videos
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1 Videos

  • Lecture 3 - Visualizing Molecules in Living Cells: Fluorescent Tools

1 Readings

  • Lecture Slides

Quantification and Lab-Based Video

    • 2 Videos
    • 1 Readings
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2 Videos

  • Lecture 4 - Quantification
  • Lecture 5 - Lab-Based Video

1 Readings

  • Lecture Slides

Quiz

    • 1 Assignment
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1 Assignment

  • Quiz 5

Readings

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1 Readings

  • Reading List

Omics data and Network Model Analyses

    • 1 Videos
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1 Videos

  • Lecture 1 - Omics data and Network Model Analyses

1 Readings

  • Lecture Slides

Single Cell Time Course Data and Dynamical Model Analyses

    • 1 Videos
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1 Videos

  • Lecture 2 - Single Cell Time Course Data and Dynamical Model Analyses

1 Readings

  • Lecture Slides

Quiz

    • 1 Assignment
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1 Assignment

  • Quiz 6

Dynamical Model Case Study

    • 1 Videos
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1 Videos

  • Lecture 3 - Dynamical Model Case Study

1 Readings

  • Lecture Slides

Readings

    • 1 Readings
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1 Readings

  • Reading List

Final Exam

    • 1 Assignment
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1 Assignment

  • Final Exam

Auto Summary

Dive into the fascinating world of systems biology with this foundational course focusing on experimental methods. Led by Coursera, it explores cutting-edge technologies like RNA sequencing, mass spectrometry-based proteomics, flow/mass cytometry, and live-cell imaging. Over 1080 minutes, learners gain both theoretical and practical insights, targeting those interested in biotechnology and disease research. Available with Starter and Professional subscriptions, this course is perfect for science and engineering enthusiasts aiming to master quantitative data analysis for computational modeling.

Marc Birtwistle, PhD
Instructor

Marc Birtwistle, PhD