REU 2020

Computational Foundations

• Brief Overview of the Praxis AI Platform and Overview of the Learning Paths
• Accessing Praxis Cloud
• Introduction To Linux and the Command Line
• Jupyter Notebooks
• A Brief Intro to Machine Learning in Google Colaboratory

Programming with Python

Selected chapters from out python Book

• Analyzing Patient Data
• Loops Lists Analyzing Data
• Functions Errors Exceptions
• Defensive Programming Debugging

Introduction to Python (ePub) (PDF)

Coronavirus Overview

Basic Virology and Immunology

Case Study: 1918 Influenza Pandemic: Prior to COVID-19, the 1918 influenza pandemic was the most severe pandemic in recent history. First identified in military personnel in the spring of 1918, the influenza was an H1N1 virus of avian origin. It is commonly referred to by scientists and historians as “the Mother of all Pandemics.” This pandemic is often referred to as the “Spanish Flu” in the lay press, though this name is a misnomer, and the virus likely originated elsewhere. Contemporary reporting focused heavily on Spain, as it was one of few places at the time that did not have restrictions on the press during World War I.

SnapShot: COVID-19: In December 2019, several cases of pneumonia of unknown origin were reported in Wuhan, China. The causative agent was characterized as a novel coronavirus, initially referred to as 2019-nCoV and renamed severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) (Zhou et al., 2020b). This respiratory illness, coronavirus disease 2019 (COVID-19), has spread rapidly by human-to-human transmission, caused major outbreaks worldwide, and resulted in considerable morbidity and mortality. On March 11, 2020, WHO classified COVID-19 as a pandemic. It has stressed health systems and the global economy, as governments balance prevention, clinical care, and socioeconomic challenges.

Basic Virology and Immunology: In December 2019, a series of cases of pneumonia of unknown origin were reported in Wuhan, the capital city of Hubei province in China. The causative virus was isolated and characterized in January 2020 (Zhou et al., Nature 2020, Zhu et al., NEJM 2020). On January 12, 2020, the World Health Organization (WHO) tentatively named the virus as the 2019 novel coronavirus (2019-nCoV). On January 30, 2020 WHO issued a public health emergency of international concern (PHEIC) and on February 11, 2020, the WHO formally named the disease caused by the novel coronavirus as coronavirus disease 2019 (COVID-19). At that time, based on its genetic relatedness to known coronaviruses and established classification system, the International Committee on Taxonomy of Viruses classified and renamed 2019-nCoV as severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). On March 11, 2020, the WHO formally characterized the global spread of COVID-19 as a pandemic, the first to be caused by a coronavirus.

Clinical Presentation

Clinical Presentation

Management of COVID-19

Management of COVID-19

Investigational Therapeutics and Vaccine Development

Investigational Therapeutics and Vaccine Development

Coronavirus Genomics Superlab

Pull from Computational Biology Journey

SARS by the numbers

SARS by the numbers

Epidemiology

Introduction to Epidemiological Terms

Principals

Summary

Introduction

Where Are We Now?

Where Are We Now?

Where Will We Be Next?

Where Will We Be Next?

Approaches to Long-Term Planning

Approaches to Long-Term Planning

Case Studies

1918-influenza-pandemic

2009 H1N1 pandemic

Soutch Korea 2020

Introduction to AI/Deep Learning

Deep Learning in Health and Medicine A: Overall Trends

Deep Learning in Health and Medicine B: Diagnostics

Deep Learning in Health and Medicine C: Examples

Deep Learning in Health and Medicine D: Impact of Corona Virus Covid-19

Deep Learning in Health and Medicine E: Corona Virus Covid-19 and Recession

Deep Learning in Health and Medicine F: Tackling Corona Virus Covid-19

Deep Learning in Health and Medicine G: Data and Computational Science and The Corona Virus Covid-19

Deep Learning in Health and Medicine H: Screening Covid-19 Drug Candidates

Deep Learning in Health and Medicine I: Areas for Covid19 Study and Pandemics as Complex Systems

REU Projects

• REU Individual Project Overview and Expectations
• Accessing the Coronavirus Datasets
• Primer on How to Analyze the Data

Effect of AI on Industry and its Transformation Introduction to AI First Engineering

Examples of Applications of Deep Learning

Optimization – a key goal of Statistics, AI and Deep Learning

Learn the Deep Learning important words/components

Deep Learning and Imaging: It’s first greast success

For the BIg Data Class we revised the following material Big Data Overview Fall 2019

Big Data, technology, clouds and selected applications

20 Videos covering Big Data, technology, clouds and selected applications

Cloud Computing

18 Videos covering cloud computing