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Authors: K. Y ×
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01.
medRxiv (Medicine) 2026-06-17

Cost-effectiveness of measles rapid diagnostic tests for replacing or expanding laboratory testing in Ethiopia

Background: In low- and middle-income countries, laboratory testing to rapidly detect measles outbreaks is limited by infrastructure availability and high costs. This study estimates the potential impact and cost-effectiveness of measles rapid diagnostic tests (RDTs) if implemented nationally in Ethiopia to either replace or expand current testing. Methods: An agent-based model to simulate measles outbreaks was calibrated to Ethiopian measles surveillance data. Modelled outbreak outcomes were aggregated over a 10-year period. Scenarios included using RDTs to (1) replace laboratory testing; (2) replace epidemiological linkage; and (3) increase case detection, in addition to replacing laboratory testing and epidemiological linkage. Testing and outbreak response costs (in 2025 US$) were obtained from Ethiopian Public Health Institute from a government perspective. Total costs and disability-adjusted life years (DALYs) for each scenario were compared to baseline. Results: All scenarios were cost saving compared to baseline. Replacing laboratory testing with RDTs saved US$4.2M (3.2M-4.9M) over 10-years, but due to very low testing rates the benefits of eliminating laboratory testing delays were offset by missed cases from the lower RDT sensitivity, leading to similar outbreak detection times and DALYs. Replacing epidemiological linkage with RDTs had similar DALYs but increased the cost savings to US$9.7M. Using RDTs to double case detection reduced outbreak detection time from 113 to 80 days, averted 17,000 DALYs, and saved US$4.3M. Conclusions: In Ethiopia, use of measles RDTs could be cost saving, and if used to expand testing could prevent measles infections through faster outbreak detection and response.

02.
bioRxiv (Bioinfo) 2026-06-17

Correcting spatial transcriptomics data affected by a prevalent transcript leakage problem across platforms, species, and tissues

Spatial transcriptomics has been widely applied to study the spatial distribution of cell types, cell states, and specific gene expression in tissue samples. However, we show that there is a prevalent transcript leakage problem in spatial transcriptomics data, where transcripts expressed by a cell diffuse to its neighborhood and are recurrently detected in the nearby cells. By analyzing published data sets, we show that this problem is general across data produced from different tissues and different species using different imaging-based and sequencing-based spatial transcriptomics platforms. It affects both upstream tasks such as expression quantification as well as downstream tasks such as cell-type annotation and detection of spatially-dependent gene expression. To tackle the transcript leakage problem, we propose a reference-free Bayesian model-based method, DeLeakage, which cleans up the data much more effectively than existing denoising methods. DeLeakage also improves cell-type annotation and avoids false detection of spatially dependent expression.

03.
medRxiv (Medicine) 2026-06-25

Sensitive periods for prenatal alcohol exposure shape internalizing symptoms across development

Importance Prenatal alcohol exposure (PAE) is associated with lasting cognitive and neurodevelopmental deficits and can quadruple risk for depression later in life. However, it remains unknown whether there are specific trimesters when PAE is more strongly associated with longitudinal trajectories of internalizing symptoms - an indicator of depression risk - across childhood and adolescence. Objective To investigate how PAE timing and dosage are associated with internalizing symptom trajectories from ages 4 to 16.5 years. Design, Setting and Participants We analyzed prospective data from the Avon Longitudinal Study of Parents and Children (ALSPAC), an ongoing longitudinal birth cohort from the United Kingdom. Internalizing symptom trajectories were estimated for 6,409 participants. Primary analyses were conducted on 2,254 participants with complete data on PAE in all three trimesters, covariates, and trajectories. Main Outcomes and Measures We used growth mixture modelling to identify latent trajectories of depressive symptoms measured using the internalizing symptom scale from the Strengths and Difficulties Questionnaire (SDQ) at seven occasions between ages 4 to 16.5 years. Prospective alcohol consumption during each trimester were categorized into three PAE dosages: unexposed (0 drinks/week), low (1-7 drinks/week) and high (7+ drinks/week). Results We identified five distinct depressive symptom trajectories: stable low (75.9% of participants), moderate childhood peak (11.2%), progressive increase (5.57%), high early childhood (4.73%), and early adolescent peak (2.61%). PAE in the second (relative risk [RR]=2.08, 95% CI=1.15-3.76) and third trimesters (RR=1.83, 95% CI=1.05-3.21), as well as total PAE burden across pregnancy (RR=1.33, 95% CI=1.06-1.68) increased risk for the progressive increase trajectory, versus the stable low trajectory. High PAE in the second (RR=2.71, 95% CI=1.41-5.21) and third (RR=2.27, 95% CI=1.27-4.05) trimesters drove elevated risk for this trajectory. PAE in the first trimester or at low dosages showed no associations with depressive symptom trajectories. Negative control analyses of paternal drinking also found no associations. Conclusions and Relevance Our results highlight the second and third trimesters as potential sensitive periods for the impact of PAE on rising depressive symptoms from childhood to adolescence. Ultimately, these findings could inform the design of prevention programs, and facilitate targeted interventions to youth at elevated risk for depression.

04.
medRxiv (Medicine) 2026-06-22

GCH1 p.Ser80Asn Confers Risk for Parkinson's Disease in East Asian Populations

Introduction: GCH1 has been implicated in Parkinson's disease (PD), but its risks variants and associations are not well defined. Objectives: To investigate the clinical relevance and PD risk associated with the GCH1 p.Ser80Asn variant. Methods: We first identified a segregating GCH1 p.Ser80Asn variant in a Malaysian Chinese PD family via whole genome sequencing (WGS). We assessed its risk association using multi-ancestry WGS data from the Global Parkinson's Genetics Program (GP2) (n=22,372PD vs n=8,826Controls) and meta-analysis of East Asian (EAS) cohorts (n=4,712PD vs 38,733Controls). Clinico-demographic details of affected variant carriers were collated. Results: The GCH1 p.Ser80Asn variant was enriched in GP2 EAS PD populations (n=9/2,757; 0.33%) but not detected in other ancestries. Meta-analysis revealed increased PD risk in EAS populations (odds ratio:5.1; 95%CI:2.3-10.7; p=2.89x10-5). Affected carriers (mean age at onset:56.3+-12.5 years) had additional occurrence of dystonia, while dementia was rare. Conclusions: The GCH1 p.Ser80Asn variant is a rare, EAS-enriched risk variant for PD.

05.
medRxiv (Medicine) 2026-06-24

Rare protein-coding variation and the genetic architecture of height in >1.4 million individuals

Highly heritable, polygenic, and easily measured, adult height has long been the model trait in human genetics. While the landscape of height-associated common genetic variation has been studied extensively, rare variation remains relatively unexplored. Using rare protein-altering variants in a discovery set of 826,066 exomes, we identify 207 height-associated genes - 98% of which replicate in an additional 624,567 individuals. The rarest and most deleterious class of variation, singleton (frequency