Epidemiologist Toolbox

Risk Calculator

Reproduction Number Calculator

Epicurve Helper

Geocoding Helper

Map Helper

Time sorting Helper

ggplot2 Helper

Distribution Fitting Helper

CNIDS

Chinese Notifiable Infectious Diseases Surveillance Project

2024-04

Kangguo Li

School of Public Health, Xiamen University

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Publications and projects

Peer-Reviewed Articles

Ye, Wenjing et al. Inactivated vaccine effectiveness against symptomatic COVID-19 in Fujian, China during the Omicron BA.2 outbreak. Frontiers in public health (2023).

Li, Kangguo et al. Viral dynamics of omicron BA.2.76 variant of SARS-CoV-2 in a cohort of COVID-19 patients. The Journal of infection (2023).

Li, Kangguo et al. Comparative analysis of transmission and vaccine effectiveness in Omicron and Delta variant outbreaks in China. The Journal of infection (2023).

Li, Kangguo et al. Feasibility of Booster Vaccination in High-Risk Populations for Controlling Coronavirus Variants - China, 2021. China CDC weekly (2021).

Temporal shifts in 24 notifiable infectious diseases in China before and during the COVID-19 pandemic. Principle accept by Nature Communications.

Manuscripts in Preprint or Under Review

Pertussis resurgence in Australia, China, the United Kingdom and the United States. Under reviewed by Nature Communications.

Achievements

Academic Standout of Xiangan Campus, Xiamen University (2023), Yanan Scholarship, Xiamen University (2023), National Scholarship of China (2022), Saifu Medical & Pharmaceutical Scholarship (2022) and Excellent Merit Student of Xiamen University (2022)

Epidemiologist Toolbox
(https://toolbox.ctmodelling.cn/)

Risk Calculator: Automatic crawling of population migration data, weighted calculation of relative risk.

Reproduction Number Calculator: Interconnection with R package (EpiEstim, R0 etc.) without programming skills.

Epicurve Helper: Creating epidemic curve online.

Geocoding Helper: Convert address information to latitude and longitude.

Map Helper: Creating map online.

Time sorting Helper: Finding missing date and pivoting data.

ggplot2 Helper: A online version of R package (esquisse), to create ggplot2 plot without programming skills.

Distribution Fitting Helper: Fitting common distribution of data.

Epidemiologist Toolbox

Risk Calculator

Reproduction Number Calculator

Epicurve Helper

Geocoding Helper

Map Helper

Time sorting Helper

ggplot2 Helper

Distribution Fitting Helper

CNIDS

Background

Why do not build a dashboard for every reported infectious disease?

Dynamic surveillance

AI-driven Report

Chinese Notifiable Infectious Diseases Surveillance Report

What’s more?

SMTP

provided by gmail to send information (developing)

Forms

provided by microsoft to recording subscribe and unsubscribe

Project design

Further direction

Professionalization

Local deploying open source model to avoid data breaches

Source: Cascella et al. J Med Syst 2024

Internationalization

Including more countries and regions

Source: Healthmap

Pertussis resurgence

Global situation

the UK, the US, Australia, Philippines, European Union and …

(a-b) Australia; (c-d) China; (e-f) the UK; (g-h) the US.

Unpublished result

(a-b) Australia; (c-d) China; (e-f) the UK; (g-h) the US.

Unpublished result

Possible reasons

Interruptions to routine immunization

The coverage of the third dose of the diphtheria-tetanus-pertussis (DTP3) vaccine from 86% in 2019 to 81% in 2021, the lowest since 2008

PHSMs lead to a lack of immune stimulation in the population

As PHSMs relax, more susceptible individuals may result in pertussis levels approaching or even surpassing pre-pandemic levels

Macrolide-resistant strains of Bordetella pertussis

In 2020, a new type of macrolide-resistant pertussis bacterium containing the pxxP3 and prn2 genes emerged in Shanghai, China, and rapidly spread in the subsequent period, replacing the previous predominant strain.

Acellular pertussis vaccines

limited efficacy in against infection and transmission

National vaccine strategy