Data for "Life course malaria exposure and SARS-CoV-2 Sero-epidemiology in Ugandan adolescents: a longitudinal study nested in a birth cohort" – Data Codebook

Persistent identifier

10.17037/DATA.00005044

Description

This data was collected from a longitudinal study nested within the Entebbe Mother and Baby Study birth cohort in Uganda. Adolescents were enrolled and followed up 6 and 12 months later. Blood samples were collected at each visit for SARS-CoV-2 serology. Malaria exposure was defined using prospectively collected data on clinical malaria (from birth to 10 years), asymptomatic parasitaemia at annual visits, and antibody responses to Plasmodium falciparum merozoite surface protein 2 (PfMSP-2) and apical membrane antigen 1 (PfAMA-1). The primary outcome was SARS-CoV-2 seropositivity, based on spike and nucleocapsid IgG responses, with seropositivity cut-offs derived from pre-pandemic samples. Secondary outcomes, including antibody concentrations and symptomatic PCR-confirmed disease, were explored.

Data Codebook

The CoHost study dataset contains 121 variables in total, outlined below.

Variable Name Variable Label Answer Label Answer Code Variable Type
Sconc_CoHost_wk0 POPVAC wk52/Cohost week 0 IgG, S protein, Arbitrary ELISA Units, ug/ml Open ended   Numeric
Nconc_CoHost_wk0 POPVAC wk52/Cohost week 0 IgG, N protein, Arbitrary ELISA Units, ug/ml Open ended   Numeric
Sconc_CoHost_wk26 CoHost wk26 IgG, S protein, Arbitrary ELISA Units, ug/ml Open ended   Numeric
Nconc_CoHost_wk26 CoHost wk26 IgG, N protein, Arbitrary ELISA Units, ug/ml Open ended   Numeric
Sconc_CoHost_wk52 CoHost wk52 IgG, S protein, Arbitrary ELISA Units, ug/ml Open ended   Numeric
Nconc_CoHost_wk52 CoHost wk52 IgG, N protein, Arbitrary ELISA Units, ug/ml Open ended   Numeric
rec_sex Sex     Numeric
    Male 1  
    Female 2  
rec_age Age (Years) Open ended   Numeric
rec_stsch Is the participant still in school?     Numeric
    No 0  
    Yes 1  
rec_hsch Highest level of school completed     Numeric
    None 1  
    P1 2  
    P2 3  
    P3 4  
    P4 5  
    P5 6  
    P6 7  
    P7 8  
    S1 9  
    S2 10  
    S3 11  
    S4 12  
    S5 13  
    S6 14  
rec_tbvactrial Has participant taken part in the TB042 trial?     Numeric
    No 0  
    Yes 1  
rec_popvactrial Has participant taken part in the POPVAC C trial?     Numeric
    No 0  
    Yes 1  
rec_sbp Blood pressure (mmHg) (SBP) Open ended   Integer
rec_temp Temperature Open ended   Numeric
rec_dbp Blood pressure (mmHg) (DBP) Open ended   Numeric
rec_pulse Pulse (bpm) (PULSE) Open ended   Integer
rec_ht Height (cm) (HGT) Open ended   Numeric
rec_wt Weight (kg) (WGT) Open ended   Numeric
enr_cont 1. To your knowledge, have you had contact with anyone with suspected or confirmed COVID-19?     Numeric
    No 0  
    Yes 1  
enr_expcov 2. Since the beginning of last year (2020) have you experienced a COVID-like illness?     Numeric
    No 0  
    Yes 1  
    Not sure 99  
enr_mcov If Yes, in which month did this start?     Numeric
    January 1  
    February 2  
    March 3  
    April 4  
    May 5  
    June 6  
    July 7  
    August 8  
    September 9  
    October 10  
    November 11  
    December 12  
enr_ycov If Yes, in which year did this start?     Integer
    2019 2019  
    2020 2020  
    2021 2021  
    2022 2022  
    2023 2023  
enr_ldcov Number of days Open ended   Numeric
enr_lwcov Number of weeks Open ended   Numeric
enr_lmcov Number of months Open ended   Numeric
enr_duration_cov If Yes, how long did the illness last?     Numeric
    Days (enr_ldcov) 1  
    Weeks (enr_lwcov) 2  
    Months {enr_lmcov} 3  
enr_ongcov If Yes, is the illness still ongoing?     Numeric
    No 0  
    Yes 1  
enr_actcov If yes, did the illness affect your ability to undertake your normal daily activities?     Numeric
    No 0  
    Yes 1  
enr_hspcov If Yes, did the illness require you to be hospitalised?     Numeric
    No 0  
    Yes 1  
enr_oxycov If Yes, did the illness require you to be put on oxygen?     Numeric
    No 0  
    Yes 1  
enr_covtst If Yes, did you have a COVID test?     Numeric
    No 0  
    Yes 1  
enr_rsltcov If Yes, what was the result of the COVID test?     Numeric
    Negative 1  
    Positive 2  
    Not sure 3  
enr_covvac 3. Have you been vaccinated against SARS-CoV-2?     Numeric
    No 0  
    Yes, partial (first jab) 1  
    Yes, fully 2  
enr_vacdate When did you receive your last SARS-CoV-2 jab? Open ended   Numeric
fever Any history of fever?     Numeric
    No 0  
    Yes 1  
runny History of runny nose?     Numeric
    No 0  
    Yes 1  
cough History of cough?     Numeric
    No 0  
    Yes 1  
soreth History of sore throat?     Numeric
    No 0  
    Yes 1  
shbrh History of shortness of breath?     Numeric
    No 0  
    Yes 1  
taste History of loss of taste or smell?     Numeric
    No 0  
    Yes 1  
fatigue History of fatigue?     Numeric
    No 0  
    Yes 1  
head History of Headache?     Numeric
    No 0  
    Yes 1  
mpains History of muscle pains?     Numeric
    No 0  
    Yes 1  
othsp Other symptom?     Numeric
    No 0  
    Yes 1  
enr_oth_spec If Other Symptom, specify Open ended   String
enr_dfever If Yes (for fever), for how long have you had this symptom (in days)? Open ended   Numeric
enr_drunny If Yes (for runny nose), for how long have you had this symptom (in days)? Open ended   String
enr_dcough If Yes (for cough), for how long have you had this symptom (in days)? Open ended   String
enr_dsoreth If Yes (for sore throat), for how long have you had this symptom (in days)? Open ended   Numeric
enr_dshbrh If Yes (for shortness of breath), for how long have you had this symptom (in days)? Open ended   Numeric
enr_dtaste If Yes (for loss of taste or smell), for how long have you had this symptom (in days)? Open ended   Numeric
enr_dfatigue If Yes (for fatigue), for how long have you had this symptom (in days)? Open ended   String
enr_dhead If Yes (for headache), for how long have you had this symptom (in days)? Open ended   String
enr_dmpains If Yes (for muscle pains), for how long have you had this symptom (in days)? Open ended   String
enr_dothsp If Yes, for how long have you had this symptom (in days)? Open ended   String
enr_medatt 5. Did any of the above symptoms require you to seek medical attention?     Numeric
    No 0  
    Yes 1  
    Dont know 99  
enr_misssch 6. Did any of the above symptoms require you to miss school or interfer with daily activities?     Numeric
    No 0  
    Yes 1  
    Dont know 99  
enr_reqhosp 7. Did any of the above symptoms require you to be hospitalised?     Numeric
    No 0  
    Yes 1  
    Dont know 99  
enr_reqoxyg 8. Did any of the above symptoms make you require oxygen?     Numeric
    No 0  
    Yes 1  
    Dont know 99  
enr_skinsh Any examination abnormality on skin?     Numeric
    No 0  
    Yes 1  
enr_respsh Any examination abnormality in the respiratory system?     Numeric
    No 0  
    Yes 1  
enr_cardsh Any examination abnormality in the cardiovascular system?     Numeric
    No 0  
    Yes 1  
enr_gastsh Any examination abnormality in the gastrointestinal system?     Numeric
    No 0  
    Yes 1  
enr_neursh Any examination abnormality in the neurological system?     Numeric
    No 0  
    Yes 1  
enr_allergsh Any examination abnormality allergy related?     Numeric
    No 0  
    Yes 1  
enr_surgsh Any significant Surgery in the past?     Numeric
    No 0  
    Yes 1  
enr_othhissh Other, specify     Numeric
    No 0  
    Yes 1  
labvac_pat_vday_dose1 Vaccination visit day for dose 1     Numeric
    First Dose visit 1  
    Second dose visit (after 4 weeks) 2  
    Vaccination end point (4 weeks post Dose 2) 3  
lab_vacc_1_dose1 Is the Child eligible for COVID-19 dose 1?     Numeric
    No 0  
    Yes 1  
lab_vacc_dose1 Is the Child eligible for COVID-19 dose 2?     Numeric
    No 0  
    Yes 1  
labvacc_adm_dose1 Was vaccine Administered for dose 1?     Numeric
    No 0  
    Yes 1  
labvac_vacc_dose1 Which vaccine was administered for dose 1?     Numeric
    Pfizer 1  
    Other 2  
labvacc_spec_dose1 If other vaccine for dose 2, Specify Open ended   Numeric
labvac_pat_vday_dose2 Vaccination visit day for dose 2     Numeric
    First Dose visit 1  
    Second dose visit (after 4 weeks) 2  
    Vaccination end point (4 weeks post Dose 2) 3  
lab_vacc_dose2 Is the Child eligible for COVID-19 dose 2?     Numeric
    No 0  
    Yes 1  
labvacc_adm_dose2 Vaccine Administered for dose 2?     Numeric
    No 0  
    Yes 1  
labvac_vacc_dose2 Which vaccine was administered for dose 2?     Numeric
    Pfizer 1  
    Other 2  
labvacc_spec_dose2 If other Vaccine for dose 2, Specify Open ended   Numeric
bcgscar BCG scar     Numeric
    absent 0  
    present 1  
    uncertain 98  
moccp 37 What is your mothers occupation?     Numeric
    unemployed 1  
    student 2  
    fisherman 3  
    fishmonger 4  
    fish processing 5  
    market vendor 6  
    shopkeeper 7  
    bar attendant 8  
    restaurant/ hotel/lodge attendant 9  
    bar/restaurant/lodge owner 10  
    saloon attendant 11  
    mechanic 12  
    boat owner 13  
    farmer 14  
    housewife 15  
    teacher 16  
    health worker/ drug shop owner 17  
    carpenter 18  
    builder 19  
    charcoal burner 20  
    lumberer 21  
    unemployed 22  
    other (specify) 23  
moccsp Other mother occupation, Specify Open ended   String
bcggp BCG vaccine strain used     Numeric
    Bulgaria 1  
    Russia 2  
    Denmark 3  
any_helminth_allvisits Any helminth infection, annual visits 1-5, 9     Numeric
    No 0  
    Yes 1  
emabs_albB EMaBS baby randomised to albendazole     Numeric
    No 0  
    Yes 1  
emabs_albM EMaBS mum randomised to albendazole     Numeric
    No 0  
    Yes 1  
emabs_prazM EMaBS mum randomised to praziquantel     Numeric
    No 0  
    Yes 1  
tb042group TB042 group (dose escalation) and trial arm     Numeric
    BCG revaccination 1  
    ChAdOx1 85A and MVA85A 2  
ks_composite Kaposi’s sarcoma-associated Herpesvirus     Numeric
    Positive 0  
    Negative 1  
composite_lrti History of Lower Respiratory Tract Infection     Numeric
    No 0  
    Yes 1  
CMV_cat Age of CMV infection     Numeric
    1 year and below 0  
    above 2 years 1  
hsv_cat Age of HSV infection     Numeric
    2 years and below 0  
    above 3 years 1  
noro_cat Age of norovirus infection     Numeric
    1 year and below 0  
     above 2 years 1  
education_category Highest level of participant’s education     Numeric
    Primary 1  
    Secondary 2  
occ_covid_risk Maternal Occupation COVID-19 Exposure     Numeric
    High risk 1  
    Moderate risk 2  
    Low risk 3  
    Unemployed 4  
    Others 5  
ses_gp Social Economic Status (SES) at enrolment     Numeric
    Lowest SES (Poorest) 1  
    Low SES (Poor) 2  
    Middle SES (Moderate) 3  
    High SES (Wealthiest) 4  
composite_allergy2 Clinically diagnosed allergy during infancy & childhood     Numeric
    No 0  
    Yes 1  
current_residence Current residence     Numeric
    Urban 1  
    Rural 2  
self_reportedSxs COVID-19-like self-reported symptoms prior to enrolment     Numeric
    No 0  
    Yes 1  
bmi_category Body Mass Index at enrolment     Numeric
    Underweight 1  
    Normal 2  
    Overweight and above 3  
popvac_trialarm_num BCG revaccination status in the POPVAC C     Numeric
    No BCG 0  
    BCG 1  
malaria_countcat Number of clinical malaria episodes from birth to 10 yrs     Numeric
    None 0  
    1 episode 1  
    2-4 episodes 2  
    >4 episodes 3  
composite_malaria_yesno2 clinical malaria episode from birth to 10 years     Numeric
    No 0  
    Yes 1  
any_malaria_asymp2 asymptomatic malaria infection at ages 1-5 and 9 years     Numeric
    No 0  
    Yes 1  
log_PfAMA1_IgG_titre Log transformed PfAMA-1 antibody level Open ended   Numeric
log_PfMSP2_IgG_titre Log transformed PfMSP-2 antibody level Open ended   Numeric
enr_vacc_status COVID-19 Vaccinated status at enrollment     Numeric
    Not vaccinated 0  
    Vaccinated 1  
log_Sconc_CoHost_wk0 SARS-CoV-2 log S-Protein antibody levels at week 0 Open ended   Numeric
log_Sconc_CoHost_wk26 SARS-CoV-2 log S-Protein antibody levels at week 26 Open ended   Numeric
log_Sconc_CoHost_wk52 SARS-CoV-2 log S-Protein antibody levels at week 52 Open ended   Numeric
post_bin_Sconc_wk0 SARS-CoV-2 S-protein antibody seropositivity at week 0     Numeric
    Negative 0  
    Positive 1  
post_bin_Sconc_wk26 SARS-CoV-2 S-protein antibody seropositivity at week 26     Numeric
    Negative 0  
    Positive 1  
post_bin_Sconc_wk52 SARS-CoV-2 S-protein antibody seropositivity at week 52     Numeric
    Negative 0  
    Positive 1  
log_Nconc_CoHost_wk0 SARS-CoV-2 log N-Protein antibody levels at week 0 Open ended   Numeric
log_Nconc_CoHost_wk26 SARS-CoV-2 log N-Protein antibody levels at week 26 Open ended   Numeric
log_Nconc_CoHost_wk52 SARS-CoV-2 log N-Protein antibody levels at week 52 Open ended   Numeric
post_bin_Nconc_wk0 SARS-CoV-2 N-protein antibody seropositivity at week 0     Numeric
    Negative 0  
    Positive 1  
post_bin_Nconc_wk26 SARS-CoV-2 N-protein antibody seropositivity at week 26     Numeric
    Negative 0  
    Positive 1  
post_bin_Nconc_wk52 SARS-CoV-2 N-protein antibody seropositivity at week 52     Numeric
    Negative 0  
    Positive 1  
seropositive_status_b SARS-CoV-2 combined S-and N-protein antibody seropositivity at week 0     Numeric
    Not Infected 0  
    Infected 1  
seropostive_status_wk26 SARS-CoV-2 combined S-and N-protein antibody seropositivity at week 26     Numeric
    Not Infected 0  
    Infected 1  
seropositive_status_wk52 SARS-CoV-2 combined S-and N-protein antibody seropositivity at week 52     Numeric
    Not Infected 0  
    Infected 1