Course: BIOSTAT 202: Opportunities and Challenges of Complex Biomedical Data: Introduction to the Science of "Big Data" (Summer 2018)

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Opportunities and Challenges Biomedical Data:
Introduction to the Science of "Big Data"

BIOSTAT 202 Summer 2018 (3 units).

Course Director: David Glidden, PhD.
Professor, Department of Epidemiology and Biostatistics

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Select section Thursday, August 2, 2018; 1:00 PM - 2:30 PM

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Thursday, August 2, 2018; 1:00 PM - 2:30 PM
Lecture: Introduction to the course
What is data science/big data? What makes it different from non-big data? What big data can and cannot do. Phases of data science: getting data, merging and cleaning data, storing and accessing data, visualizing or telling stories with data, drawing conclusions from data

Faculty: Charles McCulloch

Location: Mission Hall 1400
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  1)      Data mining with SPSS modeler. Theory, Exercises and Solutions. Tilo Wendler and Sören Gröttrup. Springer, Switzerland, 2016. Available for free electronically within the UCSF network via http://link.springer.com/book/10.1007%2F978-3-319-28709-6. This book is focused on the IBM SPSS Data Modeler software, though is still useful for learning about methods. The book provides background on using IBM SPSS Data Modeler for data cleaning and manipulation and then onto the application of simple statistical methods and visualization, before going on to cover regression, data-reduction methods, clustering and classification. The book gives IBM SPSS Data Modeler examples and screenshots throughout.
  
  2)      An introduction to statistical learning. Gareth James, Daniela Witten, Trevor Hastie, and Robert Tibshirani. New York: Springer, 2013 and is available for free via www-bcf.usc.edu/~gareth/ISL/. Largely a machine learning book. The book is technical in places, but strives to explain things in text. The book provides accompanying code in R to illustrate concepts, but the R material is restricted to lab sections at the end of each chapter; understanding R is not necessary for following the general concepts in the book.
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Select section Thursday, August 2, 2018; 2:45 PM - 4:15 PM

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Thursday, August 2, 2018; 2:45 PM - 4:15 PM
Computer Lab: Introduction to software

Faculty: Charles McCulloch

Location: Mission Hall 1400
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Select section Monday,August 6, 2018; 1:00 PM - 2:30 PM

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Monday,August 6, 2018; 1:00 PM - 2:30 PM
Lecture: Getting data from large databases
Public use data (NHANES, NIS, CMS, national death index, etc, large cohort studies). Electronic health records. Social media.

Faculty: Charles McCulloch

Location: Mission Hall 1400
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Select section Thursday, August 9, 2018; 1:00 PM - 2:30 PM

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Thursday, August 9, 2018; 1:00 PM - 2:30 PM
Lecture: Managing data and data storage
Data harmonization and curation. Issues with poor quality data.

Faculty: Elaine Allen

Location: Mission Hall 1400
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Select section Thursday, August 9, 2018; 2:45 PM - 4:15 PM

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Thursday, August 9, 2018; 2:45 PM - 4:15 PM
Computer Lab 2

Faculty: Elaine Allen

Location: Mission Hall 1400
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Select section Monday, August 13, 2018; 1:00 PM - 2:30 PM

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Monday, August 13, 2018; 1:00 PM - 2:30 PM
Lecture: Machine Learning 1
Introduction. Supervised learning. Statistical regression models for prediction (continuous outcomes)

Faculty: Dave Glidden

Location: Mission Hall 1400
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Select section Thursday, August 16, 2018; 1:00 PM - 2:30 PM

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Thursday, August 16, 2018; 1:00 PM - 2:30 PM
Lecture: Machine Learning 2
Regression continued. Classification methods. Training/validation/test

Faculty: Dave Glidden

Location: Mission Hall 1400
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Select section Thursday, August 16, 2018; 2:45 PM - 4:15 PM

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Computer Lab 3

Faculty: Dave Glidden

Location: Mission Hall 1400
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Select section Monday, August 20, 2018; 1:00 PM - 2:30 PM

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Monday, August 20, 2018; 1:00 PM - 2:30 PM
Lecture: Machine Learning 3
Classification methods continued. Unsupervised learning: K means clustering.

Faculty: Dave Glidden

Location: Mission Hall 1400
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Select section Thursday, August 23, 2018; 1:00 PM - 2:30 PM

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Lecture: Machine Learning 4
More unsupervised learning methods

Faculty: Dave Glidden

Location: Mission Hall 1400
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Select section Thursday, August 23, 2018; 2:45 PM - 4:15 PM

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Thursday, August 23, 2018; 2:45 PM - 4:15 PM
Computer Lab 4

Faculty: Dave Glidden

Location: Mission Hall 1400
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Select section Monday, August 27, 2018; 1:00 PM - 2:30 PM

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Monday, August 27, 2018; 1:00 PM - 2:30 PM
Lecture: Digital Health
Electronic data sensors. Issues with data storage and processing.

Faculty: Mark Pletcher

Location: Mission Hall 1400
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Select section Thursday, August 30, 2018; 1:00 PM - 2:30 PM

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Thursday, August 30, 2018; 1:00 PM - 2:30 PM
Lecture: Data visualization/story-telling
Graphical and tabular methods for displaying data to uncover/understand associations.

Faculty: Elaine Allen

Location: Mission Hall 1400
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Computer Lab 5

Faculty: Elaine Allen

Location: Mission Hall 1400
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Select section Thursday, September 6, 2018; 1:00 PM - 2:30 PM

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Lecture: Case study in big data
Rotating

Faculty: Marina Sirota

Location: Mission Hall 1400
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Select section Monday, September 10, 2018; 1:00 PM - 2:30 PM

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Monday, September 10, 2018; 1:00 PM - 2:30 PM
Lecture: Causal Inference From Big Data
Issues of bias and how to minimize. Selection bias. Methods to minimize bias in observational studies.

Faculty: Charles McCulloch

Location: Mission Hall 1400
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