Selective Syllabus
This course provides an introduction to the epidemiology of transboundary animal diseases (TADs) and the application of spatial epidemiology. It will focus on animal diseases with epidemic potential which present high transmission rates and the potential capability of a very rapid spread, irrespective of national borders. Students will develop an understanding of the key concepts about TAD control and how and when to use spatial analysis for this purpose. Topics covered will include introduction to TADs spread and control, development, understanding and use of different types of spatial data, causal inference with spatial data, and specific examples of applications of spatial analysis to epidemiological problems including biogeography. The course will also provide initial training for undergraduate students in the use of disease mapping applied in surveillance and control of TADs and its extrapolation to other animal diseases including pets.
Proposed typical term and frequency (circumstances may dictate variances, but a typical expectation is helpful for planning)
Preferred Term(s): Spring Only
Preferred Week(s): Week 1 Only
Preferred Year: Offered Every Year
Minimum Enrollment: 5
Maximum Enrollment: 12
Course Restrictions :
Professional Year Restrictions: PY1 only
Instructor Permission: Default: No IP required
Other Restrictions: none
By the end of the course, the students will be able to:
- Define and differentiate transboundary diseases versus foreign animal diseases, as well as passive versus active surveillance.
- Identify the different spatial data (i.e. raster, polygons and point dispersion), and how they are used to make informative decision in the public and private sector.
- Be able to describe basic concepts of spatial and spatiotemporal epidemiology
- Value of spatial epidemiology; when and why to use its tools
- Types of spatial disease spread patterns
- Determinants and indicators of transboundary animal diseases
- Use R to produce disease maps and apply basic spatial epidemiologic analyses to describe and control transboundary diseases.
Name and Title: Gustavo Machado DVM. MS. PhD
Assistant Professor
Email:gmachad@ncsu.edu
Phone:(919) 513-6249
Office Hours: By Appointment
Office Location: RB-450
N/A
No required textbooks. Relevant reading will be posted on the course Moodle site.
None.
None.
To receive a satisfactory ("S") grade for this selective, students are expected to complete each of the following components:
| Component | Weight |
|---|---|
| Critical review of at least one published article | 50% |
| Group assignment- The development of a R-Markdown (annotated) file to be shared with all students | 50% |
| Total | 100% |
The practice of Veterinary Medicine involves a number of risks: physical injury, exposure to infectious diseases, exposure to anesthetic agents, exposure to chemotherapeutic drugs, and exposure to radiation. You have received training in minimizing these risks, but should alert a clinician immediately if you feel you are in danger or if you are actually injured.
If an extended deadline is not authorized, an unfinished incomplete grade will automatically change to an F after either (a) the end of the next regular semester in which the student is enrolled (not including summer sessions), or (b) by the end of 12 months if the student is not enrolled, whichever is shorter. Incompletes that change to F will count as an attempted course on transcripts. The burden of fulfilling an incomplete grade is the responsibility of the student. The university policy on incomplete grades is located at http://policies.ncsu.edu/regulation/reg-02-50-03.
Late assignments will not be accepted.
For complete attendance and excused absence policies, please see http://policies.ncsu.edu/regulation/reg-02-20-03 and http://www.cvm.ncsu.edu/academicaffairs/Attendance.html
Students are required to comply with the respective CVM and university policy on academic integrity found at http://www.cvm.ncsu.edu/academicaffairs/conduct.html and
http://policies.ncsu.edu/policy/pol-11-35-01
Students are responsible for reviewing the PRRs which pertain to their course rights and responsibilities. These include: http://policies.ncsu.edu/policy/pol-04-25-05 (Equal Opportunity and Non-Discrimination Policy Statement), http://oied.ncsu.edu/oied/policies.php (Office for Institutional Equity and Diversity), http://policies.ncsu.edu/policy/pol-11-35-01 (Code of Student Conduct) and http://policies.ncsu.edu/regulation/reg-02-50-03 (Grades and Grade Point Average).
Reasonable accommodations will be made for students with verifiable disabilities. In order to take advantage of available accommodations, student must register with the Disability Services Office (http://www.ncsu.edu/dso), 919-515-7653. For more information on NC State's policy on working with students with disabilities, please see the Academic Accommodations for Students with Disabilities Regulation at http://policies.ncsu.edu/regulation/reg-02-20-01.
NC State University provides equality of opportunity in education and employment for all students and employees. Accordingly, NC State affirms its commitment to maintain a work environment for all employees and an academic environment for all students that is free from all forms of discrimination. Discrimination based on race, color, religion, creed, sex, national origin, age, disability, veteran status, or sexual orientation is a violation of state and federal law and/or NC State University policy and will not be tolerated. Harassment of any person (either in the form of quid pro quo or creation of a hostile environment) based on race, color, religion, creed, sex, national origin, age, disability, veteran status, or sexual orientation also is a violation of state and federal law and/or NC State University policy and will not be tolerated. Retaliation against any person who complains about discrimination is also prohibited. NC State's policies and regulations covering discrimination, harassment, and retaliation may be accessed at http://policies.ncsu.edu/policy/pol-04-25-05 or http://www.ncsu.edu/equal_op/. Any person who feels that he or she has been the subject of prohibited discrimination, harassment, or retaliation should contact the Office for Equal Opportunity (OEO) at 919-515-3148.
NOTE: The course schedule is subject to change.
9.00-9.30 Introductions, review syllabus, course expectations, and goals (GM)-Lecture
9.30-10.30 Lecture and Group Discussion- Foreign animal disease vs transboundary animal diseases-main emerging TADs (GM)-Lecture
10.30-12:00 Lecture: Transboundary animal diseases-global repository and issues with secondary data in disease surveillance and tools (GM)-Lecture
12.00-1.00 Lunch
1.00-5.00 Lab: Assignment, write a one-page summary of the main conclusion of both papers (submit by email to gmachad@ncsu.edu) by tomorrow morning 9 am.
9.00-10.00 Lecture- Introduction to spatial data point, polygons and raster-open source (data repositories) (Felipe)-Lecture
10:30-11.00 Lecture- Introduction to concepts of disease ecology and their application to transboundary animal diseases data (Felipe)-Lecture
11.00-12.00 Lab: Download TADs data and integrate to spatial scale (Group assignment in R) (Felipe)-(https://empres-i.apps.fao.org/) Tutorial presentation
12.00-1.00 Lunch
1.30-3:30 Lab: Practice with data provided by the instructor (GM)-(Group assignment in R)-Code
9.00-10.30 Lab: Practice with data provided by the instructor-from a table to a map (GM)-Code
10.30-12.00 Lab: Students work in groups on project assignments (Group assignment in R and start reading)
12.30-1.30 Lunch
1.30-5.00 Individual Study: Students work individually on a paper assignment-Draft
9.00-11.00 Lab: (Felipe) all distance base codes and other analysis Lab_2 and show how to do in QGIS
11.00-12.30 Work with data from Poland and replicate the analysis done with DR data.
12.30-1.30 Lunch
1.30-5.00 Group writing short communication-Draft & Work with data from Poland and replicate the analysis done with DR data.
9.00-11:00 Time to finish writing and next step for authors that would like to be part of the publication-Draft