{'fraction_non_alphanumeric': 0.030169504981937992, 'fraction_numerical': 0.028621333015759597, 'mean_word_length': 5.01097590073968, 'pattern_counts': {'":': 0, '<': 10, '<?xml version=': 0, '>': 2, 'https://': 0, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 1, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
Predictors of Uptake and Timeliness of Newly Introduced Pneumococcal and Rotavirus Vaccines, and of Measles Vaccine in Rural Malawi: A Population Cohort Study

Background Malawi introduced pneumococcal conjugate vaccine (PCV13) and monovalent rotavirus vaccine (RV1) in 2011 and 2012 respectively, and is planning the introduction of a second-dose measles vaccine (MV). We assessed predictors of availability, uptake and timeliness of these vaccines in a rural Malawian setting. Methods Commencing on the first date of PCV13 eligibility we conducted a prospective population-based birth cohort study of 2,616 children under demographic surveillance in Karonga District, northern Malawi who were eligible for PCV13, or from the date of RV1 introduction both PCV13 and RV1. Potential predictors of vaccine uptake and timeliness for PCV13, RV1 and MV were analysed respectively using robust Poisson and Cox regression. Results Vaccine coverage was high for all vaccines, ranging from 86.9% for RV1 dose 2 to 95.4% for PCV13 dose 1. Median time delay for PCV13 dose 1 was 17 days (IQR 7–36), 19 days (IQR 8–36) for RV1 dose 1 and 20 days (IQR 3–46) for MV. Infants born to lower educated or farming mothers and those living further away from the road or clinic were at greater risk of being not fully vaccinated and being vaccinated late. Delays in vaccination were also associated with non-facility birth. Vaccine stock-outs resulted in both a delay in vaccine timeliness and in a decrease in completion of schedule. Conclusion Despite high vaccination coverage in this setting, delays in vaccination were common. We identified programmatic and socio-demographic risk factors for uptake and timeliness of vaccination. Understanding who remains most vulnerable to be unvaccinated allows for focussed delivery thereby increasing population coverage and maximising the equitable benefits of universal vaccination programmes.


Introduction
Malawi has proactively pursued the fourth Millennium Development Goal of reducing child mortality which it is expected to meet [1]. The early adoption of thirteen-valent pneumococcal conjugate (PCV13) and monovalent rotavirus (RV1) vaccines has been part of this strategy, with introductions on 12 th November 2011 and 29 th October 2012 respectively. PCV13 and RV1 are given according to World Health Organisation (WHO) recommended schedule at 6 and 10 weeks for doses 1 and 2, and 14 weeks for third dose PCV13 along with Pentavalent vaccine (diphtheria, pertussis, tetanus, Haemophilus influenzae type B and hepatitis B) and oral polio. Initial catch-up vaccination for PCV13 was conducted at the time of introduction with infants <1 year of age at date of first dose to receive 3 doses at 1 month intervals, even if subsequent doses would be given in the second year of life. Currently no PCV booster is scheduled. Measles vaccine (MV) is currently given as a single dose at 9 months of age, but a number of African countries including Malawi are planning introduction of a second dose [2]. Nationwide and district level MV campaigns are conducted when necessary. In our study site in Karonga district there have been four MV campaigns among infants <1 year of age between 2011 and 2014; one in 2011 and three in 2014.
Vaccination remains the cornerstone of public health intervention to reduce childhood morbidity and mortality, but oftentimes there are select groups that achieve poorer coverage than the national average [3]. Furthermore, vaccine coverage estimates do not reflect timeliness of vaccination, which may frequently be delayed [4,5]. Previous work in this setting prior to introduction of PCV1 and RV1 showed high uptake of vaccines but delays in schedule [6]. As part of a national evaluation of impact and effectiveness of new vaccines in Malawi [7], we analysed data from a population-based birth cohort study to investigate factors affecting vaccination coverage and timeliness in northern Malawi during the period of introduction of pneumococcal and rotavirus vaccines. We also took the opportunity to examine predictors of MV coverage and timeliness with a view to informing national considerations of introduction of a second dose.

Study population and design
In this prospective population-based birth cohort study we followed up all children born in the Karonga Health and Demographic Surveillance Site (KHDSS) on or after: 11 th November 2010 (thus eligible for PCV13 catch-up), 30 th September 2011 (eligible for routine PCV13 schedule) and 17 th September 2012 (eligible for RV1). Established in 2002, the KHDSS situated in northern Malawi covers an area of 135km 2 and has a population of 35,000 persons under continuous surveillance through which all births, deaths and migrations are recorded [8,9]. The KHDSS area is predominantly rural, with agriculture, fishing and petty trading as main sources of income [8]. The surveillance area includes one rural hospital, five health centres and 23 outreach vaccination clinics (Fig 1). Data were collected during the KDHSS annual census at which all households are visited and individual and household socio-demographic data are collected by trained interviewers. Individual socio-demographic data including vaccine status for children <5 years were available until August 2014. Vaccine status and date of vaccination were transcribed from parent-held booklets ("health passports") issued free by the government to all children at birth or first clinic visit. Absent vaccine documentation, parent/guardian reported vaccination status was recorded. Geographical Positioning System (GPS) coordinates were collected to calculate radial distance to nearest tarmac road or main track and to the nearest vaccination centre. We included in the analysis all children eligible for PCV13 or RV1 who were at least 1 year old at time of interview. We excluded: (1) children who died within the first year of life; (2) children who had migrated into the study area after 6 weeks of age from the PCV13/RV1 birth cohort or those migrating after start of the PCV13 catch-up campaign from the catch-up cohort; (3) any child whose date of birth or vaccination status could not be verified by written record. Children with documented evidence of vaccine receipt but lacking date were included in the coverage analysis, but excluded from timeliness analysis. Sensitivity analyses were performed to define risk factors associated with lack of written document and to repeat the main analyses including children without written documentation.

Definitions
Individual uptake of vaccination was defined by the child's written record in the health passport. Population vaccination coverage in the PCV13 and RV1 birth cohorts was calculated as the number of children receiving vaccination by one year of age divided by age-eligible population for each respective vaccine. For PCV13 catch-up campaign coverage we used the number of children vaccinated from among all catch-up eligible children in our study site at the time of data collection regardless of age. For measles vaccination we calculated vaccination coverage at one year of age, and vaccination coverage at any age. We were unable to distinguish measles vaccination as a result of mass campaign from routine doses given off schedule. Timeliness of vaccination for birth cohorts was calculated as number of days between the recommended vaccination age and the date vaccine was given, regardless of age. Children who never received the vaccine were right-truncated at one year of age. Delays in later doses subtracted any delays on account of prior doses (for example if dose 1 was given at 8 weeks (2 weeks delay) and dose 2 at 12 weeks, delay for dose 2 was considered 0, because it had been given correctly at 4 weeks after dose 1). Total delay was defined as the number of days between completing the schedule for a particular vaccine (third dose for PCV13, second dose for RV1, first dose for MV) and the recommended vaccination age. We presumed vaccine non-availability at local clinic, among the birth cohort only, when PCV13 or RV1 were administered later than the corresponding dose of Pentavalent vaccine.

Statistical analysis
Potential individual level predictors of vaccine uptake and clinic level predictors of discordant delays (presumed non-availability) were separately examined using univariable and multivariable Poisson regression with robust standard errors [11,12], and reported as risk ratios (RR) and adjusted RR (aRR) respectively ("risk" being probability of receiving a vaccine dose) [13]. We report timeliness as median days delay (and interquartile range [IQR]). Predictors of vaccine timeliness (total delay in vaccination) were examined using univariable and multivariable Cox regression, and reported as crude and adjusted hazard ratio (HR and aHR) respectively, where HR<1 implies delayed vaccination compared with baseline group ("hazard" being probability of receiving a vaccine dose at time t). Although our analysis examined numerous covariates, we did not perform correction for multiple comparisons in univariable analysis [14], but for multivariable models included initially only covariates achieving P-value <0.2 in univariable analysis. We retained in the final multivariable model those covariates achieving a likelihood ratio test P-value <0.05. Analysis was performed using Stata 12.1 (Statacorp, Texas) and R 3.0.1 (R Foundation for Statistical Computing, Vienna).

Ethics
Informed written consent was obtained from all parents or legal guardians of participants. Ethical approval was obtained from the Malawi National Health Sciences Research Committee (#837) and the institutional review board of the London School of Hygiene and Tropical Medicine (#6047). The study was funded by the Wellcome Trust who had no input into data collection, analysis, interpretation or decision to submit for publication.

Results
We visited 2616 vaccine-eligible children at home who were >1 year at time of interview. Of these 51 had no documented birth date, 428 had no written documentation to confirm vaccination status and 152 migrated into the study area after vaccine-eligible age, leaving 1985 (75.8%) for analysis. Among these, 768 were eligible for PCV13 catch-up, 820 for PCV13 by routine schedule prior to RV1 introduction and 397 for both PCV13 and RV1 (Fig 2).

Vaccine 'non-availability'
In the PCV13 birth cohort there were 276 of 1007 (27.4%) children who received the third dose of PCV13 later than the third dose of Pentavalent vaccine. Of 336 children eligible for RV1, 122 (36.3%) children received second dose RV1 later than the respective Pentavalent dose (S1 Table). Assumed "vaccine non-availability" for PCV13 decreased with time since national introduction, but vaccine non-availability for RV1 remained high and no clear association with time since introduction was observed. PCV13 non-availability was higher in the rainy than in the dry season (dose 1: aRR 1.63, 95% CI 1.12-2.37). Non-availability of vaccines was associated with further distance from the road for both PCV13 dose 1 (aRR1.57, 95%CI 1.07-2.30) and RV1 dose 1 (aRR 2.65, 95%CI 1.68-4.19). Children whose initial PCV13 doses were delayed compared with Pentavalent, were less likely to complete their PCV13 series (aRR 0.82, CI 0.76-0.89 where dose 1 delayed; aRR 0.86, CI 0.81-0.91 where dose 2 delayed) (S2 Table).

Predictors of vaccination coverage by catch-up campaign
Among children in the PCV13 catch-up cohort, age at onset of campaign was strongly associated with uptake of third dose of PCV13 with 77.5% vaccinated among those <4 months old versus 9.7% amongst those 10-12 months old at time of campaign onset (aRR 0.13, CI 0.08-0.22). Children born to mothers aged 30 years were less likely to be vaccinated with three doses (aRR 0.77, CI 0.64-0.92). Vaccine coverage with at least one dose of PCV13 was higher amongst males (aRR 1.11, CI 1.02-1.20), but this effect was no longer observed for coverage with three doses (aRR 1.05, CI 0.93-1.18) ( Table 1). Table 2 summarizes the predictors of low uptake for all studied vaccines. Time since national introduction was an important predictor of vaccination coverage in the PCV13 birth cohort, with higher coverage >9 months compared to 0-3 months since introduction (aRR 1.09, CI 1.05-1.13; aRR 1.16, CI 1.09-1.23 for first and third dose respectively) (S2 Table). Uptake was lower if vaccination was due in the rainy season than in the dry season (aRR 0.97, CI 0.95-1.00 for dose 1). Maternal farming was associated with a lower uptake of PCV13 (aRR 0.96, CI 0.93-0.98 for dose 1, aRR 0.93, CI 0.89-0.98 for dose 3). Children from larger households or those with more children were more likely to receive PCV13. Children were less likely to be fully vaccinated for the third dose of PCV13 if distance to the nearest clinic was 1.5km (aRR 0.89, CI 0.81-0.98).

Predictors of vaccination coverage by routine schedule
For RV1 uptake was higher if mother was not married (aRR 1.08, CI 1.01-1.15 for dose 1) or if maternal age was 40 years (aRR 1.10, CI 1.00-1.21 for dose 2), but lower if distance to the nearest road was 1.5km (aRR 0.80, CI 0.69-0.93 dose 1; aRR 0.75, CI 0.63-0.90 dose 2) (S3 Table). In contrast to the PCV13 birth cohort, children were less likely to be vaccinated with RV1 if they lived in a household with more than three children <5 years of age (aRR 0.77, CI 0-59-1.00 dose 2).
Infants were less likely to receive MV if there were other children in the household (aRR 0.94, CI 0.91-0.97), if distance to the nearest clinic was 1.5km (aRR 0.91, CI 0.85-0.98) or if their mothers were farmers (aRR 0.92, CI 0.89-0.96). Children were more likely to be vaccinated if the mother attended post-primary education (aRR 1.09, CI 1.00-1.18) (S4 Table).  Table 3 summarizes the predictors for total delay in vaccination for all studied vaccines. Total delay in vaccination was associated with living further away from the road. Living with more under-five children was associated with delays for MV and RV1. Maternal farming and non-facility birth were associated with delays in PCV13 and MV. Lower maternal education was associated with delayed MV. PCV13 delay was associated with moving house in the vaccination period and vaccination due in the rainy season, but no such associations were observed for RV1 and MV (S5, S6 and S7 Tables).

Sensitivity analysis including children without written documentation
There were 428 children without written documentation of PCV13 and RV1 vaccine status. Verbal report of PCV13 vaccine status was available for 356 children, provided by the mother

Discussion
Malawi has been proactive in the trialling, introduction and post-roll out evaluation of vaccines, and as our data show, has achieved high coverage and good timeliness, even in our remote study setting. As with all universal programmes some gaps remain. Studies that have examined factors associated with vaccination coverage and timeliness of vaccines in sub- Saharan Africa, have found that lower vaccine uptake and untimely vaccination were associated with low socioeconomic status, low maternal education, non-facility birth, and increased distance to a health facility [4][5][6][15][16][17][18][19][20][21][22][23][24][25][26][27][28][29][30][31] (S8 Table), consistent with the findings of this study.
No studies were conducted in the context of newly introduced PCV13 and RV1. In this study located at a Demographic Surveillance Site, despite our communal context of homogenous cultural affiliation and of socioeconomic standing and remoteness, we found programmatic and socio-demographic characteristics that are associated with vaccination coverage and timeliness among individual infants in a rural region of Malawi. The recognition that there exist individual vulnerabilities even in an otherwise homogenous setting is important, and we return to this point in our recommendations.
We made the assumption that if Pentavalent vaccine was received on time but PCV13 was delayed then this was due to local non-availability of the latter. At the time of PCV13 introduction in late 2011 Malawi suffered major fuel shortages that impacted on distribution of newly introduced vaccines and many other societal functions. Although we are unable to verify this assumption, presumed non-availability reduced with time since national introduction and was  Table 3. Summary of survival analyses on predictors of delay in vaccination.

Vaccine
Predictors of increased total delay in vaccination 1 Vaccine Uptake and Timeliness in Rural Malawi associated with seasonality and distance from the road. More remote health centres generally serve a more scattered population residing away from dense centres, and often away from sealed roads. Such health centres are more difficult to access by the vaccine programme delivery mechanisms; we tried to capture this, albeit imperfectly, by including in distance to sealed road. Non-availability of early doses predicted not only total vaccination delay, but also noncompletion of the vaccine course. Recognising the challenges in place at the time of PCV13 introduction, the Malawi National Immunisation Technical Advisory Group conducted several sessions to review lessons learnt from PCV13 in planning for RV1 introduction. These reviews included wide representation from ministerial, non-government and academic health planners with vaccine programme experience, epidemiologists, procurement, media, finance and transport specialists. Separately conducted coverage estimates from southern Malawi do suggest rapid attainment of RV1 population coverage [32], although in our more remote setting RV1 non-availability seemed to persist over time.
Despite the decision to provide catch-up vaccination to infants, the country was provided with doses adequate only for the birth cohort [33]. Coverage achieved among infants was moderate, but was low amongst older infants (9.7% for dose 3 amongst those 10-12 months at time of campaign onset). It is likely that available PCV13 doses were prioritised for younger infants, but alternative hypotheses for the lower uptake amongst older infants are that mothers were unaware of the programme for older infants, or that mothers were reluctant or could not afford to make an additional visit to the health centre, but accepted vaccination as part of the routine schedule for younger infants.
We identified several socio-demographic predictors of vaccine coverage and timeliness. Specific associations varied by vaccine and dose and should be interpreted with caution, particularly when results are counterintuitive, conflicting, of borderline significance or so small as to be not meaningful for example RV1 uptake being higher among unmarried mothers, or crowded households being associated with higher uptake of PCV13 coverage but lower uptake of RV1 and MV. Despite these caveats, we did find that infants living further away from the road or clinic were consistently more likely to be vaccinated late and less likely to complete vaccination as previously found in the same setting [6]. Both measures of distance capture slightly different challenges in reaching vaccine services. Distance from road is a measure of remoteness and in this setting a marker for socioeconomic status. Distance to clinic reflects accessibility more directly. Lower maternal education was consistently associated with lower vaccine uptake and more delays, although significance on multivariable analysis was only retained for MV. This finding provides further evidence for the importance of maternal education in remote rural settings, and of community sensitisation methods other than printed media. Infants born to farming mothers were more likely to be vaccinated late and less likely to complete vaccination for PCV13 and MV. It is plausible that farming mothers have fewer opportunities to bring their child to the clinic on time. With regards to the catch-up campaign for PCV13, greater maternal age was associated with lower uptake. For both RV1 and MV living in a household with multiple children <5 years was a risk factor for both lower uptake and delayed timeliness. Infants born outside of health facilities were vaccinated later for PCV13 and MV. For PCV13, vaccination due in the rainy season was found to be associated with lower uptake and more delays. In rural Malawi health facilities are spaced approximately every 10km to make access possible by foot. However, during the rains this is challenging, since torrents frequently wash away bridges and render footpaths impassable and farming communities are busy with planting and weeding. Noting the factors associated with MV coverage is important because if our coverage levels reflect those in the whole population <5 years herd protection against measles will not be achieved.
Vaccination timeliness is important for several reasons. Optimising vaccine schedules requires balancing benefits of delayed vaccination, such as prolonged immunity, against protection at an early age in the context of high force of infection [34][35][36]. Timeliness is also a marker of the functionality of the national vaccine delivery system so is of inherent interest to health service planners.

Limitations
Our study has limitations. Excluding children if written documentation of dates was unavailable may lead to an overestimation of vaccine coverage for PCV13 and RV1 since reported coverage was lower among children without documentation. Coverage estimates for measles may have been underestimated if doses given during district-wide campaigns were unrecorded, consistent with higher coverage reported by parents than documented in health passport. A sensitivity analysis including children without written documentation did not alter the main findings of this study. Our data could not distinguish whether written documentation was missing because the health passport was truly lost, or because the mother, generally in charge of keeping the children's health passports, was not available at time of the interview. The low proportion of mothers available at time of interview for children for whom written documentation was not available (44.9% vs. 84.3% for children with documentation) suggests that both scenarios occur. We included only children surviving to one year of age. We hypothesise that children dying in infancy are more likely to be unvaccinated, and this is currently being investigated [7]; results are anticipated in 2016. Our data come from an area under continuous demographic surveillance which may have an increased vaccine uptake. Although vaccine uptake may be higher in our Demographic Surveillance Site than in other areas, the risk factors we found for low uptake or poor timeliness of vaccination are likely to be relevant to other rural African settings not under continuous demographic surveillance. A fortiori, if in an area with relatively good service provision we identified children whose circumstances adversely affect vaccine coverage, then in other rural areas with similar socio-demographics but less functioning health systems, such children are very likely to be under-served. In the absence of reliable data on stock-outs, we made the assumption that delay in new vaccines when older vaccines were given on time was due to non-availability of new vaccines. The validity of this assumption cannot be confirmed. Our definition would miss non-availability of all vaccines, however in practice initial post-introduction delivery to clinics of PCV13 and RV1 occurred separately from routine vaccine delivery.

Conclusion
Although vaccination coverage is moderately high in this rural population of northern Malawi, we found that infants born to lower educated mothers or farming mothers and those living further away from the road or clinic were at greater risk of being not fully vaccinated and being vaccinated late. We also found delays in vaccination to be associated with non-facility birth. Vaccine stock-outs which were more likely during the rains resulted in both a delay in vaccine timeliness and in fewer infants being fully vaccinated. Countries introducing new vaccines should (i) ensure adequate stock and resources for planned catch-up campaigns and strengthen system required for rapid roll-out and delivery. (ii) Understand who remains most vulnerable so that focussed delivery to improve access to immunisation occurs. This is crucial for maximising the equitable benefits of universal vaccination programmes. (iii) Ensure culturally appropriate and understandable health information about vaccines is widely available together with a continued focus on making vaccines as accessible as possible to families on the social margins. These suggested recommendations are essential if the full benefits of vaccination programmes are to be realized amongst the most vulnerable.
Supporting Information S1 Table. Robust Poisson regression for factors associated with PCV13 or RV1 given at a later date than Pentavalent vaccine: "vaccine non-availability". (DOCX) S2 Table. Univariable and multivariable analysis of predictors of pneumococcal vaccine uptake in the birth cohort.