Published August 14, 2023 | Version v1
Dataset Open

Open Avian Flu Dataset

Creators

Description

Description: The Open Avian Flu Dataset (OAFD) is a collection of structured and curated data related to avian influenza (bird flu) outbreaks. It is designed to support research, analysis, and modeling efforts aimed at understanding the spread, impact, and control of avian flu. The dataset could encompass various aspects of avian flu, including viral strains, geographic distribution, host species, clinical outcomes, genetic sequences, and more.

Contents:

  1. Geographic Data: Information about the locations of avian flu outbreaks, including latitude, longitude, country, region, and affected farms or regions.
  2. Temporal Data: Dates of outbreak initiation, and detection.
  3. Viral Strains: Information about the avian influenza virus strains involved in different outbreaks.
  4. Host Species: Data on the types of bird species affected by each outbreak.
  5. Clinical Data: Details on the clinical symptoms, morbidity, and mortality rates associated with different outbreaks.

Purpose: The purpose of the Open Avian Flu Dataset is to facilitate collaborative research, analysis, and modeling efforts aimed at understanding and mitigating the impact of avian flu outbreaks. By making this data openly accessible, researchers, epidemiologists, public health officials, and data scientists can work together to develop effective strategies for prevention, control, and response to avian flu outbreaks.

It's important to note that the specific content and structure of such a dataset can vary based on the sources of data, the objectives of the initiative, and the time frame of data collection. To find the most up-to-date and accurate information about any open dataset for avian flu, I recommend checking with reliable sources such as international health organizations, research institutions, or relevant data repositories.

Table of contents

Details of the OAFD files. 

Folder

Subfolder

File

Description

Africa

-

africa-outbreaks.csv

Number of HPAI detections in African countries not reporting via ADIS, by virus subtype and species [1].

Americas

Argentina

1.     argentina_aves_de_corral_cases.csv

2.     argentina_aves_no_corral_cases.csv

Number of HPAI detections in Argentine reported by Senasa, by province and species [2].

USA

1.     commercial-backyard-flocks.csv

2.     hpai-mammals.csv

3.     hpai-wild-birds.csv

Number of HPAI detections in USA reported by USDA/APHIS, by state, virus subtype and species [3].

-

americas-outbreaks.csv

Summary of HPAI detections in Americas, by country, virus subtype and species [1].

Asia

-

asia-outbreaks.csv

Number of HPAI detections in Asian countries not reporting via ADIS, by virus subtype and species [1].

Europe

Italy

1.     hpai-domestic-poultry-2021-2022.csv

2.     hpai-domestic-poultry-2022-2023.csv

3.     hpai-wild-birds-2021-2022.csv

4.     hpai-wild-birds-2022-2023.csv

Number of HPAI detections in Italy reported by IZSVe [4], by region, virus subtype and species.

United Kingdom

1.     human-potential-exposures.csv

2.     poultry-wildbirds-england.csv

3.     wild-mammals-england.csv

4.     wild-mammals-international.csv

Number of HPAI detections in United Kingdom reported by GOV.UK [5], by region, virus subtype and species.

-

europe-outbreaks.csv

Summary of HPAI detections in Europe, by country, virus subtype and species [1].

Line-lists

-

2023-03-01-avian-flu-linelist

This folder contains key information about reported human cases, with each row representing a case and each column representing a variable such as demographic, clinical, and epidemiologic information.

H5

1.     2022-10-21-avian-flu-linelist.csv

2.     2023-01-09-avian-flu-linelist.csv

3.     …

H5/H5N1

1.     2022-01-14-avian-flu-linelist.csv

2.     2022-05-06-avian-flu-linelist.csv

3.     …

 

H3N8

2023-03-27-avian-flu-linelist.csv

PDFs

-

Avian influenza overview:

1.     December 2021.pdf

2.     March – June 2022.pdf

3.     June – September 2022.pdf

4.     September – December 2022.pdf

5.     December 2022– March 2023.pdf

6.     Annex December 2022– March 2023 -Data on birds.pdf

7.     March – April 2023.pdf

8.     April – June 2023.pdf

This folder contains the main reports (in PDF format) [1] used to populate the dataset.

 

images

 

Fr6xLWsXoAA_gpj.jpeg

…

This folder contains

image files or graphics relevant to the repository's content. These images can be used for documentation, illustrations, or any visual assets that support the project.

-

-

README.md

This file contains information about the project and the other files stored in the repository.

-

-

data_dictionary.yml

This file describes the names and meanings of each variable (column), data types, possible value ranges, units of measurement, and any other relevant metadata that helps users understand the content and context of the data in the "Line-lists" files.

-

-

human-cases.csv

Summary of HPAI detections in human, by country [6].

-

-

summary-outbreaks-mammals.csv

Summary of HPAI detections in mammals, by country, virus subtype and species [7].

Abbreviation: ADIS: Animal Disease Information System; USDA: U.S. Department of Agriculture’s (USDA) Animal and Plant Health Inspection Service (APHIS); Senasa: Servicio Nacional de Sanidad y Calidad Agroalimentaria; IZSVe: Istituto Zooprofilattico Sperimentale delle Venezie; GOV.UK: United Kingdom government.


References

1.     European Food Safety Authority (EFSA) publications. Avian influenza overview. Available online: https://www.efsa.europa.eu/en/publications?s=avian+influenza+overview

 

2.     Argentina.gob.ar. Influenza aviar. Available online: https://www.argentina.gob.ar/senasa/influenza-aviar

 

3.     U.S. Department of Agriculture’s (USDA) Animal and Plant Health Inspection Service (APHIS). Avian influenza. Available online: https://www.aphis.usda.gov/aphis/ourfocus/animalhealth/animal-disease-information/avian/avian-influenza

 

4.     Istituto Zooprofilattico Sperimentale delle Venezie (IZSVe). Avian influenza in Italy: updates. Available online: https://www.izsvenezie.com/reference-laboratories/avian-influenza-newcastle-disease/italy-update

 

5.     GOV.UK. Avian influenza (influenza A H5N1): technical briefings. Available online: https://www.izsvenezie.com/reference-laboratories/avian-influenza-newcastle-disease/italy-update

 

6.     World Health Organization (WHO). Cumulative number of confirmed human cases for avian influenza A(H5N1) reported to WHO, 2003-2023. Available online: https://www.who.int/publications/m

 

7.     World Animal Health Information System (WAHIS). Events management. Available online: https://wahis.woah.org/ - /event-management

 

Files

avian-flu-main.zip

Files (24.6 MB)

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Additional details

Dates

Updated
2024-02-07