Data for: "Kankasha in Kassala: a prospective observational cohort study of the clinical characteristics, epidemiology, genetic origin, and chronic impact of the 2018 epidemic of Chikungunya virus infection in Kassala, Sudan"

Permanent Identifier

https://doi.org/10.17037/DATA.00002018

Data Creators

Bower, H, el Karsany, M, Adam, Abd Alhadi Adam Hussein, Idriss, MI, Alzain, MA, Alfakiyousif, MEA, Mohamed, R, Mahmoud, I, Albadri, O, Mahmoud, SAA, Abdalla, OI, Eldigail, M, Elagib, N, Arnold, U, Gutierrez8, B, Pybus, OG, Carter, DP, Pullan, ST, Jacob, ST, Abdallah, TM, Gannon, B and Fletcher, TE

Associated roles

el Karsany, M (Principal Investigator), Fletcher, TE (Principal Investigator) and Gannon, B (Co-Investigator)

Description

This collection contains research outputs associated with “Kankasha” in Kassala, a prospective observational cohort study of the clinical characteristics, epidemiology, genetic origin, and chronic impact of the 2018 epidemic of Chikungunya virus infection in Kassala, Sudan. The collection contains a quantitative dataset, survey questionnaires, protocols and consent forms associated with the study.

Access methods

Anonymised data may be requested for use in ethically approved research.

Research description

In 2018/19, Eastern Sudan experienced the largest epidemic of CHIKV in Africa to date, affecting an estimated 487,600 people. Known locally as Kankasha, this study examines the clinical characteristics, risk factors, and phylogenetics of the CHIKV A prospective cohort of 102 adults and 40 children were enrolled at Kassala Teaching Hospital in October 2018. Clinical information, socio-demographic data, and sera samples were analysed to confirm diagnosis, characterise illness, and identify viral strain. CHIKV infection was confirmed by real-time reverse transcription-PCR in 84.5% (120/142) of participants. Nine had concurrent CHIKV/Dengue virus (DENV) infection; 28.8% had a positive Rapid Diagnostic Test for Plasmodium falciparum. Five percent had haemorrhagic symptoms including two children with life-threatening haemorrhage. One CHIKV-positive participant died with acute renal injury. Age was not associated with severity of illness though CHIKV-infected participants were younger (p=0.003). Two to four months post-illness, 63% of adults available for follow-up (30) were still experiencing arthralgia in one or more joints, and 11% remained moderately disabled using Rapid3 assessment. Phylogenetic analysis showed all CHIKV cases identified belonged to a single clade within the Indian Ocean Lineage (IOL) of the East/Central/South African (ECSA) genotype. History of contact with an infected person was the only factor associated with infection (p=0.01), suggesting vector transmission in households is important.

Description of data capture

The study was a prospective hospital-based observational cohort of consecutive patients presenting to the Kassala Teaching Hospital medical and paediatrics outpatient departments between 10th and 16th October 2018. Recruitment criteria were individuals of any age or sex with symptoms consistent with the KTH case definition for Chikungunya, namely history of fever or a measured fever of >37.5oC (tympanic), and at least three of the following clinical features: headache, anorexia, lethargy, aching muscles or joints, breathing difficulties, vomiting, diarrhoea, stomach pain, difficulty swallowing, and hiccups, or bleeding of any kind. Patients with a positive malaria RDT were enrolled if they fit the study syndrome in case of co-infection. Participants were enrolled at presentation and blood samples taken immediately. Epidemiological information, clinical symptoms at presentation and subsequent laboratory results were recorded on standardised pro-formas (Supporting Information 1). The follow-up component took place 70-120 days after enrolment (Jan-Feb 2019) depending on the availability of participants. Adults who responded to phone follow-up provided convalescent samples and completed the WHO-validated Routine Assessment of Patient Index Data 3 (RAPID3) disability and pain survey.30 Children were not asked to return due to common reluctance to allow blood-draw from healthy children, but outcome and duration of hospital stay were confirmed with parents by phone. All contactable participants were given their PCR test results.

Data capture method

Questionnaire, Field observation, Lab observation

Data Collection Period

10 October 2018 - 16 October 2018

Keywords

Chikungunya, Clinical presentation, Genetic sequencing, Diagnostics, Sudan, Chikungunya infection, Kankasha, CHIKV

Copyright Holders

Related resources

Kankasha in Kassala: a prospective observational cohort study of the clinical characteristics, epidemiology, genetic origin, and chronic impact of the 2018 epidemic of Chikungunya virus infection in Kassala, Sudan https://www.medrxiv.org/content/10.1101/2020.09.23.20199976v1

Funders

Project title Project Funder Grant number
Kankasha in Kassala: a prospective observational cohort study of the clinical characteristics, epidemiology, genetic origin, and chronic impact of the 2018 epidemic of Chikungunya virus infection in Kassala, Sudan UK Public Health Rapid Support Team Research DHSC Overseas Development Aid RRT-1015-001

File description

Filename Description Format Type Access status Licence
KAS_dataset Tabular dataset containing information collected on 142 who received treatment. Consult codebook for information MS Excel (.xlsx), Comma Separated text (.csv) Dataset Restricted Data Transfer Agreement
KAS_dataset_codebook Codebook for KAS dataset HTML Documentation Open Creative Commons Attribution (CCBY)
UFOS_Case_Report_Form Aetiology of severe undifferentiated febrile illness outbreaks in Sudan Case Report Form (v 21.12.17) PDF Study instrument Open Creative Commons Attribution (CCBY)
CHKV_follow-up_form   MS Word (.docx) Study instrument Open Creative Commons Attribution (CCBY)
UFOS_ConsentForm_adult UFOS – Consent form for adult participants PDF Documentation Open Creative Commons Attribution (CCBY)
UFOS_participantInfoSheet UFOS – Participant Information Sheet PDF Documentation Open Creative Commons Attribution (CCBY)
UserGuide User guide for collection (this document) HTML Documentation Open Creative Commons Attribution (CCBY)