scholarly journals A Fast and Accurate Method for Genome-Wide Time-to-Event Data Analysis and Its Application to UK Biobank

2020 ◽  
Vol 107 (2) ◽  
pp. 222-233 ◽  
Author(s):  
Wenjian Bi ◽  
Lars G. Fritsche ◽  
Bhramar Mukherjee ◽  
Sehee Kim ◽  
Seunggeun Lee
2020 ◽  
Vol 267 (10) ◽  
pp. 3008-3020 ◽  
Author(s):  
Emanuele D’Amico ◽  
◽  
Aurora Zanghì ◽  
Mariangela Sciandra ◽  
Roberta Lanzillo ◽  
...  

2022 ◽  
Vol 12 (1) ◽  
Author(s):  
Peilin Meng ◽  
Jing Ye ◽  
Xiaomeng Chu ◽  
Bolun Cheng ◽  
Shiqiang Cheng ◽  
...  

AbstractIt is well-accepted that both environment and genetic factors contribute to the development of mental disorders (MD). However, few genetic studies used time-to-event data analysis to identify the susceptibility genetic variants associated with MD and explore the role of environment factors in these associations. In order to detect novel genetic loci associated with MD based on the time-to-event data and identify the role of environmental factors in them, this study recruited 376,806 participants from the UK Biobank cohort. The MD outcomes (including overall MD status, anxiety, depression and substance use disorders (SUD)) were defined based on in-patient hospital, self-reported and death registry data collected in the UK Biobank. SPACOX approach was used to identify the susceptibility loci for MD using the time-to-event data of the UK Biobank cohort. And then we estimated the associations between identified candidate loci, fourteen environment factors and MD through a phenome-wide association study and mediation analysis. SPACOX identified multiple candidate loci for overall MD status, depression and SUD, such as rs139813674 (P value = 8.39 × 10–9, ZNF684) for overall MD status, rs7231178 (DCC, P value = 2.11 × 10–9) for depression, and rs10228494 (FOXP2, P value = 6.58 × 10–10) for SUD. Multiple environment factors could influence the associations between identified loci and MD, such as confide in others and felt hated. Our study identified novel candidate loci for MD, highlighting the strength of time-to-event data based genetic association studies. We also observed that multiple environment factors could influence the association between susceptibility loci and MD.


HortScience ◽  
2004 ◽  
Vol 39 (4) ◽  
pp. 894B-894
Author(s):  
Jean-Jacques B. Dubois* ◽  
Frank A. Blazich ◽  
C. David Raper

Research by the authors has demonstrated the effect of day/night temperature difference (Tdiff) on plant growth is as substantive as the effect of daily average temperature (DAT). Dependence of plant primary productivity on temperature cannot be assessed with fewer than two data per 24 hours. Thus, the same experimental approach was applied to time to anthesis in Delphinium cultorum Voss `Magic Fountains' and Stokesia laevis L. `White Parasols', and to survival in D. cultorum. Two hundred and seventy seedlings of D. cultorum and 72 plantlets of S. laevis were grown for 56 days in growth chambers under eighteen 12 hour day/12 hour night combinations of six day and six night temperatures (10, 15, 20, 25, 30, or 35 °C). Ninety plants of D. cultorum were harvested after 13, 34, or 56 days, and 36 plants of S. laevis after 34 or 56 days. For each event of interest (anthesis or death), one datum per plant was recorded, consisting of time elapsed when either the event occurred, or the plant was harvested, whichever came first. Each datum was paired with an indicator of whether the plant was harvested prior to the event being observed. Data were analyzed using time—to—event data analysis procedures. Several parametric distributions fitted the data equally well, and both day and night temperature had strong effects on time to anthesis and survival time. However, in contrast with biomass production, DAT was quite sufficient to account for timing of these developmental events in relation to temperature. Addition of Tdiff contributed marginally to the fit to the data, but the magnitude of the effect was considerably smaller. Within the range of temperatures likely to be encountered in cultivation, the effect was negligible.


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