RUGGLES LAB


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Course Director:                
Kelly Ruggles
kelly.ruggles@nyumc.org

Course Time:
Mondays 3:00PM-6:00PM
July 10 - August 14, 2017

Alexandria West CR 508

Learning Objectives:  

  • To develop a general understanding of the techniques used in biomedical and computational biology research.
  • Gain a sense of the current state of the field.
  • Develop and improve presentation skills.
  • Increase your understanding of study design and available experimental methods and tools


This course serves to review many of the key methodologies used in molecular biology and bioinformatics. During this course we will cover a range of topics including genomics, transcriptomics, epigenetics, biomarker discovery and systems biology. A main goal of the discussion sessions is to understand the biology from an informatics perspective and to brainstorm ways to efficiently use computation techniques to approach biological problems.  

We will spend approximately 1/3 of the class discussing methodologies and general concepts and the last 2/3 of the class will be spent with student-led presentations of journal articles assigned for that week.  Every student will present a portion of each article, so you are expected to thoroughly review the papers and research background questions prior to class.  Discussions are meant to foster conversation and critical thinking in the context of biology and differences in background knowledge will be taken into account in grading.

For those with limited biology experience, I highly recommend you read “The Processes of Life” by Lawrence E. Hunter, which serves as an overview of molecular biology for non-biologists.  I am also happy to provide you with additional reading for any topics upon request.

Grade Distribution

Class Participation: 50%
Paper Presentations: 50%

Class Schedule

Week 1: Genomics and Next Generation Sequencing
Monday 7/10 3PM-6PM

Alexandria West CR508


Background Reading:

Discussion Papers:


Week 2: Transcription and Transcriptomics
Monday 7/24 3PM-6PM

Alexandria West CR508


Background Reading: 

Discussion Papers:


​Week 3: Epigenetics

Thursday 7/27 10:15AM-12PM

Alexandria West CR629


Background Reading: 

​Discuss Papers


Week 4: Translation, Proteomics and Biomarker Discovery

Monday 7/31 3PM-6PM

Alexandria West CR508


Background Reading: 

Discuss Papers:


Week 5: Systems Biology

Monday 8/7 3-6PM

Alexandria West CR508

Background Listening: 

Discussion Papers: 


Week 6: Model Organisms and Wet Lab Tour

Thursday 8/10 9AM-12PM

Alexandria West CR629

Background Reading: 

Discussion Papers: