Dataset 1: Genotyping results for 111 single nucleotide polymorphisms (SNPs) typed in 2486 Plasmodium falciparum samples collected from primary school children during a parasitological survey in western Kenya in 2009 and 2010.

The columns contain the following information: sample_id, unique sample identifier; admin1, provincial location of school; district_name, district location of school; date_visit, date of sample collection; assay_code, name of assay; allele1 and allele2, alternative alleles at a specific SNP position; result, genotype call after processing; allele_ratio1, proportion of allele 1; allele_ratio2, proportion of allele 2; pass_fail, coding of SNP based on availability of valid genotype (pass=1) or lack of a valid genotype (fail=0). Geospatial data for individual school locations is considered sensitive data and therefore cannot be made open access. However, it can be accessed through a request to our data governance committee at [email protected]. The criteria for such access is specified in detail in the data sharing guidelines under which the DGC operates, and relates to a) addressing health research, b)operating within the bounds of informed consent, c)complying with confidentiality procedures, d) mitigating potential harm to participants in research

Dataset 2: Single nucleotide polymorphisms (SNPs) and distance differences between Plasmodium falciparum parasite pairs sampled during a parasitological survey of primary school children in western Kenya.

Differences were computed for all parasite pairwise comparisons. Sample_id and sample_id_x are unique sample identifiers; snps represent the number of SNP differences between parasite pairs; distance represents geographical distance, in kilometres, between parasite pairs

Additional file 1 of Phenotypic and molecular characterization of β-lactamase-producing Klebsiella species among children discharged from hospital in Western Kenya

Supplementary Material 1

Dataset 1. Information on the 276 SNPs genotyped in 177 genes in P. falciparum parasite populations from The Gambia, Kilifi and Rachuonyo South

<p><b>Dataset 1:</b> <b>Information on the 276 SNPs genotyped in 177 genes in <i>P. falciparum </i>parasite populations from The Gambia, Kilifi and Rachuonyo South. </b>The columns contain the following information: study_location, site of sample collection; sample_id, unique sample identifier; gene_symbol, gene name (if available); chr_valid, chromosome; coord_valid= base position of SNP on chromosome; sequence_code, SNP name; assay_code, name of assay; rsnumber, unique SNP identifier in dbSNP; reference_allele, 3D7 reference allele, alternative_allele, alternative allele; single letter code, IUPAC code for SNPs; result, genotype call after processing; allele1, IUPAC code for allele 1; allele2, IUPAC code for allele 2; allele_ratio1, proportion of allele 1; allele_ratio2, proportion of allele 2; pass_fail, coding of SNP based on availability of valid genotype (pass) or lack of a valid genotype (fail). Geospatial data for homestead location is considered sensitive data and therefore cannot be made open access. However, it can be accessed through a request to our data governance committee, using the email address mmunene@uat/newsite. </p

Dataset 1: Information on the 276 SNPs genotyped in 177 genes in P. falciparum parasite populations from The Gambia, Kilifi and Rachuonyo South

<p><b>Dataset 1:</b> <b>Information on the 276 SNPs genotyped in 177 genes in <i>P. falciparum </i>parasite populations from The Gambia, Kilifi and Rachuonyo South. </b>The columns contain the following information: study_location, site of sample collection; sample_id, unique sample identifier; gene_symbol, gene name (if available); chr_valid, chromosome; coord_valid= base position of SNP on chromosome; sequence_code, SNP name; assay_code, name of assay; rsnumber, unique SNP identifier in dbSNP; reference_allele, 3D7 reference allele, alternative_allele, alternative allele; single letter code, IUPAC code for SNPs; result, genotype call after processing; allele1, IUPAC code for allele 1; allele2, IUPAC code for allele 2; allele_ratio1, proportion of allele 1; allele_ratio2, proportion of allele 2; pass_fail, coding of SNP based on availability of valid genotype (pass) or lack of a valid genotype (fail). Geospatial data for homestead location is considered sensitive data and therefore cannot be made open access. However, it can be accessed through a request to our data governance committee, using the email address mmunene@uat/newsite. </p

Flow diagram of participant numbers.

<p>Participant numbers and reasons for exclusion at each stage are shown.</p

Regression model prediction and variability explained by the predictors of the model.

<p>Panel A shows the predicted probability of a positive slide result (<i>y</i>-axis) against the prevalence of ITN use in a 2 km radius around each admitted child’s residence (shaded area represents 95% CI). Panel B shows the pseudo R² of the various variables assessed in the extended model (ITN use around a child’s residence, EVI, age, age–time interaction, time, region, and location). We repeated our analysis using a cut-off of >2,500 parasites per μl. The same patterns were seen—i.e., a pattern of a postdecline increase in MPF among older children (<a href="http://www.plosmedicine.org/article/info:doi/10.1371/journal.pmed.1002047#pmed.1002047.s006" target="_blank">S6 Fig</a>), and an inverse relationship between MPF and age of malaria (r = −0.63, <i>p</i> < 0.001) and a pattern of protection by community-level ITN use (<a href="http://www.plosmedicine.org/article/info:doi/10.1371/journal.pmed.1002047#pmed.1002047.s007" target="_blank">S7 Fig</a>). These patterns remained statistically significant.</p

Temporal trends of MPF by age and parasite prevalence.

<p>Panels A and B show the temporal trends of MPF in admitted children aged ≤ 1 y old and children aged > 1 y old, respectively; the red line represents the southern region, while the blue line represents the northern region of the creek. Panel C shows all age MPF for randomly selected locations from the southern and northern regions. Panel D shows the age-standardized parasite prevalence (i.e., <i>Plasmodium falciparum</i> parasite rate [PfPR_2-10]) among the trauma cases. Shaded areas in panels A, B, and D represent 95% CIs.</p

Temporal trends of malaria positive fraction (MPF), age of slide positivity, and mortality among acute admissions.

<p>Panel A shows the temporal trend of MPF. Panel B shows the trends of mean age over time for the slide-positive and slide-negative admissions. Panel C shows the temporal trends of absolute number of deaths, and Panel D shows case fatality rates. Shaded areas in panels A, B, and D represent 95% CIs.</p

Characteristics of the study population.

<p>Characteristics of the study population.</p