Introduction to Systems Biology

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Introduction to Systems Biology

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Description

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About this course: This course will introduce the student to contemporary Systems Biology focused on mammalian cells, their constituents and their functions. Biology is moving from molecular to modular. As our knowledge of our genome and gene expression deepens and we develop lists of molecules (proteins, lipids, ions) involved in cellular processes, we need to understand how these molecules interact with each other to form modules that act as discrete functional systems. These systems underlie core subcellular processes such as signal transduction, transcription, motility and electrical excitability. In turn these processes come together to exhibit cellular behaviors such as secretion,…

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When you enroll for courses through Coursera you get to choose for a paid plan or for a free plan

  • Free plan: No certicification and/or audit only. You will have access to all course materials except graded items.
  • Paid plan: Commit to earning a Certificate—it's a trusted, shareable way to showcase your new skills.

About this course: This course will introduce the student to contemporary Systems Biology focused on mammalian cells, their constituents and their functions. Biology is moving from molecular to modular. As our knowledge of our genome and gene expression deepens and we develop lists of molecules (proteins, lipids, ions) involved in cellular processes, we need to understand how these molecules interact with each other to form modules that act as discrete functional systems. These systems underlie core subcellular processes such as signal transduction, transcription, motility and electrical excitability. In turn these processes come together to exhibit cellular behaviors such as secretion, proliferation and action potentials. What are the properties of such subcellular and cellular systems? What are the mechanisms by which emergent behaviors of systems arise? What types of experiments inform systems-level thinking? Why do we need computation and simulations to understand these systems? The course will develop multiple lines of reasoning to answer the questions listed above. Two major reasoning threads are: the design, execution and interpretation of multivariable experiments that produce large data sets; quantitative reasoning, models and simulations. Examples will be discussed to demonstrate “how” cell- level functions arise and “why” mechanistic knowledge allows us to predict cellular behaviors leading to disease states and drug responses.

Created by:  Icahn School of Medicine at Mount Sinai
  • Taught by:  Ravi Iyengar, PhD, Dorothy H. and Lewis Rosenstiel Professor

    Department of Pharmacology and Systems Therapeutics, Systems Biology Center New York (SBCNY)
Basic Info Course 1 of 6 in the Systems Biology and Biotechnology Specialization Commitment 6-8 hours/week Language English, Subtitles: Chinese (Simplified) How To Pass Pass all graded assignments to complete the course. User Ratings 4.2 stars Average User Rating 4.2See what learners said Coursework

Each course is like an interactive textbook, featuring pre-recorded videos, quizzes and projects.

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Icahn School of Medicine at Mount Sinai The Icahn School of Medicine at Mount Sinai, in New York City is a leader in medical and scientific training and education, biomedical research and patient care.

Syllabus


WEEK 1


Systems Level Reasoning | Molecules to Pathways
Module description goes here.


5 videos, 3 readings expand


  1. Reading: Required Reading List
  2. Video: Overview of Systems Level Reasoning & Molecules to Pathways
  3. Video: Systems Level Reasoning I
  4. Video: Systems Level Reasoning II
  5. Reading: Lecture Slides
  6. Video: Molecules to Pathways - cAMP and G Protein Pathways I
  7. Video: Molecules to Pathways - cAMP and G Protein Pathways II
  8. Reading: Lecture Slides

Graded: Systems Level Reasoning | Molecules to Pathways

WEEK 2


Pathways to Networks | Physical Forces and Electrical Activity in Cell Biology
Module description goes here.


4 videos, 3 readings expand


  1. Video: Pathways to Networks - MAP-kinase Pathways/Network I
  2. Video: Pathways to Networks - MAP-kinase Pathways/Network II
  3. Reading: Lecture Slides
  4. Video: Mechanical Forces in Cell Biology
  5. Reading: Lecture Slides
  6. Video: Electrical Activity in Cell Biology
  7. Reading: Lecture Slides

Graded: Pathways to Networks | Physical Forces and Electrical Activity in Cell Biology

WEEK 3


Mathematical Representations of Cell Biological Systems | Simulations of Cell Biological Systems
Module description goes here.


4 videos, 3 readings expand


  1. Video: Mathematical Representations of Cell Biological Systems I
  2. Reading: Lecture Slides
  3. Video: Mathematical Representations of Cell Biological Systems II
  4. Reading: Lecture Slides
  5. Video: Simulations of Cell Biological Systems I
  6. Video: Simulations of Cell Biological Systems II
  7. Reading: Lecture Slides

Graded: Mathematical Representations of Cell Biological Systems | Simulations of Cell Biological Systems

WEEK 4


Experimental Technologies | Network Building and Analysis
Module description goes here.


4 videos, 4 readings expand


  1. Video: Experimental Technologies
  2. Reading: Lecture Slides
  3. Video: Analyzing Large Data Sets
  4. Reading: Lecture Slides
  5. Video: Network Building/Analysis and Data Organization
  6. Reading: Lecture Slides
  7. Video: Building Networks
  8. Reading: Lecture Slides

Graded: Experimental Technologies | Network Building and Analysis

WEEK 5


Midterm
Module description goes here.




    Graded: Midterm Exam

    WEEK 6


    Analysis of Networks | Topology to Function
    Module description goes here.


    4 videos, 3 readings expand


    1. Video: Analysis of Networks I
    2. Video: Analysis of Networks II
    3. Reading: Lecture Slides
    4. Video: From Topology to Function: Directed Sign Specified Graphs I
    5. Reading: Lecture Slides
    6. Video: From Topology to Function: Directed Sign Specified Graphs II
    7. Reading: Lecture Slides

    Graded: Analysis of Networks | Topology to Function

    WEEK 7


    Strengths and Limitations of Different Types of Models | Identifying Emergent Properties
    Module description goes here.


    4 videos, 4 readings expand


    1. Video: Strengths and Limitations of Different Types of Models I
    2. Reading: Lecture Slides
    3. Video: Strengths and Limitations of Different Types of Models II
    4. Reading: Lecture Slides
    5. Video: Identifying Emergent Properties: Bistability I
    6. Reading: Lecture Slides
    7. Video: Identifying Emergent Properties: Bistability II
    8. Reading: Lecture Slides

    Graded: Strengths and Limitations of Different Types of Models | Identifying Emergent Properties

    WEEK 8


    Emergent Properties: Ultrasensitivity and Robustness | Case Studies
    Module description goes here.


    4 videos, 4 readings expand


    1. Video: Ultrasensitivity
    2. Reading: Lecture Slides
    3. Video: Robustness and Scaffolds
    4. Reading: Lecture Slides
    5. Video: Case Studies I
    6. Reading: Lecture Slides
    7. Video: Case Studies II
    8. Reading: Lecture Slides

    Graded: Emergent Properties: Ultrasensitivity and Robustness | Case Studies

    WEEK 9


    Case Studies | Systems Biomedicine | Systems Pharmacology and Therapeutics | Perspective
    Module description goes here.


    5 videos, 4 readings expand


    1. Video: Case Studies III
    2. Reading: Lecture Slides
    3. Video: Case Studies IV
    4. Reading: Lecture Slides
    5. Video: Systems Biomedicine
    6. Reading: Lecture Slides
    7. Video: Systems Pharmacology and Therapeutics
    8. Reading: Lecture Slides
    9. Video: Perspective

    Graded: Case Studies | Systems Biomedicine | Systems Pharmacology and Therapeutics | Perspective

    WEEK 10


    Final
    Module description goes here.




      Graded: Final Exam
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