Replication Data for: Differences in epidemiology of enteropathogens in children pre- and post-rotavirus vaccine introduction in Kilifi, coastal Kenya

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Replication Data for: Differences in epidemiology of enteropathogens in children pre- and post-rotavirus vaccine introduction in Kilifi, coastal Kenya
Agoti, Charles N.; Curran, Martin; Murunga, Nickson; Ngari, Moses; Muthumbi, Esther; Lambisia, Arnold W.; Frost, Simon D.W.; Bejon,Philip; Blacklaws, Barbara; Nokes, David James; Drumright, Lydia, 2021, "Replication Data for: Differences in epidemiology of enteropathogens in children pre- and post-rotavirus vaccine introduction in Kilifi, coastal Kenya", https://doi.org/10.7910/DVN/VBCUV3, Harvard Dataverse, V1, UNF:6:JbeV79dI6Mah1hWi57Jw6Q== [fileUNF]
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Description

This is a replication dataset for the manuscript titled: "Differences in epidemiology of enteropathogens in children pre- and post-rotavirus vaccine introduction in Kilifi, coastal Kenya.

The dataset is part of long-term surveillance of enteric viruses associated with diarrhea among children under 13 years admitted to the KCH study. It contains result of 28 different enteropathogens in stools screened by Custom TaqMan Array Card (TAC) from children aged less than 13 years. The samples tested were collected in rotavirus pre-vaccine introduction period (2013) and post-vaccine introduction (2016-2018).

Subject Medicine, Health and Life Sciences
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CAgoti_Rota_Enteropathogens_Data_Codebook.pdf
CAgoti_Rota_Enteropathogens_Data_Codebook.pdf
Adobe PDF - 191.6 KB
Published Apr 13, 2021
20 Downloads
MD5: b6b5d8f755cffb8251a76212c9bb6813
Contains variable descriptions
DocumentationVariable Codebook/Data Dictionary
Preview "CAgoti_Rota_Enteropathogens_Data_Codebook.pdf"
CAgoti_Rota_Enteropathogens_Data_Readme.txt
Plain Text - 7.2 KB
Published Apr 13, 2021
13 Downloads
MD5: 5fadffce5a764208c82b879939ddcfe6
DocumentationReadme
Preview "CAgoti_Rota_Enteropathogens_Data_Readme.txt"
pathogen_prevalence_06Dec2020.tab
Tabular Data - 2.3 KB
Published Apr 13, 2021
15 Downloads
15 Variables, 26 Observations UNF:6:eImaajx1CsrjUzcXz67FxA==
DataCSVFigure1
Preview "pathogen_prevalence_06Dec2020.tab" Preview "pathogen_prevalence_06Dec2020.tab"
rotavirus_09Dec2020.tab
Tabular Data - 50.2 KB
Published Apr 13, 2021
14 Downloads
10 Variables, 749 Observations UNF:6:w6UZdchNrGPiclXJOlnm1w==
DataCSVFigure2
Preview "rotavirus_09Dec2020.tab" Preview "rotavirus_09Dec2020.tab"
tac_clinical_12Dec2019-1.tab
Tabular Data - 451.0 KB
Published Apr 13, 2021
13 Downloads
41 Variables, 4633 Observations UNF:6:hLoOv/TcLnHq52orDRyJlA==
The data is used used for the analysis of demographic and clinical characteristics of the eligible, included and excluded participants and, among participants, pre-vaccine versus the post-vaccine introduction period comparisons
DataManuscript Table1STATA (.dta)
Preview "tac_clinical_12Dec2019-1.tab" Preview "tac_clinical_12Dec2019-1.tab"
tac_clinical_12Dec2019.tab
Tabular Data - 583.2 KB
Published Apr 13, 2021
16 Downloads
41 Variables, 4633 Observations UNF:6:hoBj1NH2VgC2lqRbdb4mVw==
The data is used used for the analysis of demographic and clinical characteristics of the eligible, included and excluded participants and, among participants, pre-vaccine versus the post-vaccine introduction period comparisons
DataCSVManuscript Table1
Preview "tac_clinical_12Dec2019.tab" Preview "tac_clinical_12Dec2019.tab"
Ct_value_17Dec2020.R
R Syntax - 5.7 KB
Published Apr 13, 2021
14 Downloads
MD5: 866ed98905e5a199f79345b124654f8b
This displays boxplots that examine the relationship between the observed rotavirus detection cycle threshold (Ct) from taqman array card assay and previous enzyme-linked immunosorbent assay (ELISA) result on the same samples, period of sample collection, and patient vaccination status
CodeFigure2R Script
Preview "Ct_value_17Dec2020.R"
data_analysis_12Dec2019.do
Stata Syntax - 3.0 KB
Published Apr 13, 2021
14 Downloads
MD5: 710e68acc11cf4cbc66954cc40083daa
Used for the analysis of demographic and clinical characteristics of the eligible, included and excluded participants and, among participants, pre-vaccine versus the post-vaccine introduction period comparisons
CodeManuscript Table1STATA
Preview "data_analysis_12Dec2019.do"
prevalence_withbars_06Dec2020.R
R Syntax - 4.4 KB
Published Apr 13, 2021
14 Downloads
MD5: 1c3481a0f61e246db7a10be3868e19e0
This estimate prevalence of the assessed enteropathogens in the stool samples from children hospitalised at KCH at different PCR cycle threshold (Ct) cut-offs
CodeFigure1R Script
Preview "prevalence_withbars_06Dec2020.R"
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