Random effects models, BLUPs and redundancy analyses for grain legume crops in semi-arid environments

2018 ◽  
Vol 93 ◽  
pp. 18-26 ◽  
Author(s):  
Giovanni Avola ◽  
Ezio Riggi ◽  
Fabio Gresta ◽  
Orazio Sortino ◽  
Andrea Onofri
Keyword(s):  
Random Effects ◽  
Grain Legume ◽  
Arid Environments ◽  
Random Effects Models ◽  
Legume Crops ◽  
Semi Arid

scholarly journals Molecular Genetics and Breeding of Grain Legume Crops for the Semi-Arid Tropics

2007 ◽  
pp. 207-241 ◽  
Author(s):  
Rajeev K. Varshney ◽  
David A. Hoisington ◽  
Hari D. Upadhyaya ◽  
Pooran M. Gaur ◽  
Shyam N. Nigam ◽  
...  
Keyword(s):  
Molecular Genetics ◽  
Grain Legume ◽  
Legume Crops ◽  
Semi Arid

Positional Estimation Within a Latent Space Model for Networks

Methodology ◽  
2006 ◽  
Vol 2 (1) ◽  
pp. 24-33 ◽  
Author(s):  
Susan Shortreed ◽  
Mark S. Handcock ◽  
Peter Hoff
Keyword(s):  
Random Effects ◽  
Network Data ◽  
Random Effects Models ◽  
Space Model ◽  
Network Analyses ◽  
Recent Advances ◽  
Latent Space ◽  
Latent Space Model ◽  
Modeling Data

Recent advances in latent space and related random effects models hold much promise for representing network data. The inherent dependency between ties in a network makes modeling data of this type difficult. In this article we consider a recently developed latent space model that is particularly appropriate for the visualization of networks. We suggest a new estimator of the latent positions and perform two network analyses, comparing four alternative estimators. We demonstrate a method of checking the validity of the positional estimates. These estimators are implemented via a package in the freeware statistical language R. The package allows researchers to efficiently fit the latent space model to data and to visualize the results.

scholarly journals Dyslipidaemia and mortality in COVID-19 patients - a meta-analysis

QJM ◽  
2021 ◽  
Author(s):  
Marco Zuin ◽  
Gianluca Rigatelli ◽  
Claudio Bilato ◽  
Carlo Cervellati ◽  
Giovanni Zuliani ◽  
...  
Keyword(s):  
Random Effects ◽  
Mortality Risk ◽  
Meta Analysis ◽  
Random Effect ◽  
Final Analysis ◽  
Short Term ◽  
Random Effects Models ◽  
Pooled Prevalence ◽  
Statistical Heterogeneity ◽  
Trim And Fill

Abstract Objective The prevalence and prognostic implications of pre-existing dyslipidaemia in patients infected by the SARS-CoV-2 remain unclear. To perform a systematic review and meta-analysis of prevalence and mortality risk in COVID-19 patients with pre-existing dyslipidaemia. Methods Preferred Reporting Items for Systematic Reviews and Meta-Analyses guidelines were followed in abstracting data and assessing validity. We searched MEDLINE and Scopus to locate all the articles published up to January 31, 2021, reporting data on dyslipidaemia among COVID-19 survivors and non-survivors. The pooled prevalence of dyslipidaemia was calculated using a random effects model and presenting the related 95% confidence interval (CI), while the mortality risk was estimated using the Mantel-Haenszel random effects models with odds ratio (OR) and related 95% CI. Statistical heterogeneity was measured using the Higgins I2 statistic. Results Eighteen studies, enrolling 74.132 COVID-19 patients [mean age 70.6 years], met the inclusion criteria and were included in the final analysis. The pooled prevalence of dyslipidaemia was 17.5% of cases (95% CI: 12.3-24.3%, p < 0.0001), with high heterogeneity (I2=98.7%). Pre-existing dyslipidaemia was significantly associated with higher risk of short-term death (OR: 1.69, 95% CI: 1.19-2.41, p = 0.003), with high heterogeneity (I2=88.7%). Due to publication bias, according to the Trim-and-Fill method, the corrected random-effect ORs resulted 1.61, 95% CI 1.13-2.28, p < 0.0001 (one studies trimmed). Conclusions Dyslipidaemia represents a major comorbidity in about 18% of COVID-19 patients but it is associated with a 60% increase of short-term mortality risk.

scholarly journals Exogenously Used 24-Epibrassinolide Promotes Drought Tolerance in Maize Hybrids by Improving Plant and Water Productivity in an Arid Environment

Plants ◽  
2021 ◽  
Vol 10 (2) ◽  
pp. 354
Author(s):  
El-Sayed M. Desoky ◽  
Elsayed Mansour ◽  
Mohamed M. A. Ali ◽  
Mohamed A. T. Yasin ◽  
Mohamed I. E. Abdul-Hamid ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Agronomic Traits ◽  
Water Productivity ◽  
Positive Association ◽  
Net Photosynthesis ◽  
Antioxidant Enzyme Activities ◽  
Severe Drought ◽  
Arid Environments ◽  
Maize Hybrids ◽  
Semi Arid

The influence of 24-epibrassinolide (EBR24), applied to leaves at a concentration of 5 μM, on plant physio-biochemistry and its reflection on crop water productivity (CWP) and other agronomic traits of six maize hybrids was field-evaluated under semi-arid conditions. Two levels of irrigation water deficiency (IWD) (moderate and severe droughts; 6000 and 3000 m3 water ha−1, respectively) were applied versus a control (well-watering; 9000 m3 water ha−1). IWD reduced the relative water content, membrane stability index, photosynthetic efficiency, stomatal conductance, and rates of transpiration and net photosynthesis. Conversely, antioxidant enzyme activities and osmolyte contents were significantly increased as a result of the increased malondialdehyde content and electrolyte leakage compared to the control. These negative influences of IWD led to a reduction in CWP and grain yield-related traits. However, EBR24 detoxified the IWD stress effects and enhanced all the above-mentioned parameters. The evaluated hybrids varied in drought tolerance; Giza-168 was the best under moderate drought, while Fine-276 was the best under severe drought. Under IWD, certain physiological traits exhibited a highly positive association with yield and yield-contributing traits or CWP. Thus, exogenously using EBR24 for these hybrids could be an effective approach to improve plant and water productivity under reduced available water in semi-arid environments.

scholarly journals Association of bisphenol A with puberty timing: a meta-analysis

2020 ◽  
Vol 0 (0) ◽  
Author(s):  
Hui Meng ◽  
Yunping Zhou ◽  
Yunxia Jiang
Keyword(s):  
Bisphenol A ◽  
Confidence Intervals ◽  
Random Effects ◽  
Strong Correlation ◽  
Fixed Effects ◽  
Meta Analysis ◽  
Random Effects Models ◽  
Study Heterogeneity ◽  
The Relationship ◽  
Prevalence Ratios

AbstractObjectivesThe results of existing studies on bisphenol A (BPA) and puberty timing did not reach a consensus. Thereby we performed this meta-analytic study to explore the association between BPA exposure in urine and puberty timing.MethodsMeta-analysis of the pooled odds ratios (OR), prevalence ratios (PR) or hazards ratios (HR) with 95% confidence intervals (CI) were calculated and estimated using fixed-effects or random-effects models based on between-study heterogeneity.ResultsA total of 10 studies involving 5621 subjects were finally included. The meta-analysis showed that BPA exposure was weakly associated with thelarche (PR: 0.96, 95% CI: 0.93–0.99), while no association was found between BPA exposure and menarche (HR: 0.99, 95% CI: 0.89–1.12; OR: 1.02, 95% CI: 0.73–1.43), and pubarche (OR: 1.00, 95% CI: 0.79–1.26; PR: 1.00, 95% CI: 0.95–1.05).ConclusionsThere was no strong correlation between BPA exposure and puberty timing. Further studies with large sample sizes are needed to verify the relationship between BPA and puberty timing.

scholarly journals Comprehensive analysis and identification of drought-responsive candidate NAC genes in three semi-arid tropics (SAT) legume crops

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Sadhana Singh ◽  
Himabindu Kudapa ◽  
Vanika Garg ◽  
Rajeev K. Varshney
Keyword(s):  
Drought Stress ◽  
Candidate Genes ◽  
Developmental Stages ◽  
Biological Activities ◽  
Expression Patterns ◽  
Genome Wide ◽  
Legume Crops ◽  
Root Tissues ◽  
Semi Arid ◽  
Comprehensive Study

Abstract Background Chickpea, pigeonpea, and groundnut are the primary legume crops of semi-arid tropics (SAT) and their global productivity is severely affected by drought stress. The plant-specific NAC (NAM - no apical meristem, ATAF - Arabidopsis transcription activation factor, and CUC - cup-shaped cotyledon) transcription factor family is known to be involved in majority of abiotic stresses, especially in the drought stress tolerance mechanism. Despite the knowledge available regarding NAC function, not much information is available on NAC genes in SAT legume crops. Results In this study, genome-wide NAC proteins – 72, 96, and 166 have been identified from the genomes of chickpea, pigeonpea, and groundnut, respectively, and later grouped into 10 clusters in chickpea and pigeonpea, while 12 clusters in groundnut. Phylogeny with well-known stress-responsive NACs in Arabidopsis thaliana, Oryza sativa (rice), Medicago truncatula, and Glycine max (soybean) enabled prediction of putative stress-responsive NACs in chickpea (22), pigeonpea (31), and groundnut (33). Transcriptome data revealed putative stress-responsive NACs at various developmental stages that showed differential expression patterns in the different tissues studied. Quantitative real-time PCR (qRT-PCR) was performed to validate the expression patterns of selected stress-responsive, Ca_NAC (Cicer arietinum - 14), Cc_NAC (Cajanus cajan - 15), and Ah_NAC (Arachis hypogaea - 14) genes using drought-stressed and well-watered root tissues from two contrasting drought-responsive genotypes of each of the three legumes. Based on expression analysis, Ca_06899, Ca_18090, Ca_22941, Ca_04337, Ca_04069, Ca_04233, Ca_12660, Ca_16379, Ca_16946, and Ca_21186; Cc_26125, Cc_43030, Cc_43785, Cc_43786, Cc_22429, and Cc_22430; Ah_ann1.G1V3KR.2, Ah_ann1.MI72XM.2, Ah_ann1.V0X4SV.1, Ah_ann1.FU1JML.2, and Ah_ann1.8AKD3R.1 were identified as potential drought stress-responsive candidate genes. Conclusion As NAC genes are known to play role in several physiological and biological activities, a more comprehensive study on genome-wide identification and expression analyses of the NAC proteins have been carried out in chickpea, pigeonpea and groundnut. We have identified a total of 21 potential drought-responsive NAC genes in these legumes. These genes displayed correlation between gene expression, transcriptional regulation, and better tolerance against drought. The identified candidate genes, after validation, may serve as a useful resource for molecular breeding for drought tolerance in the SAT legume crops.

EXPRESS: A meta-analysis of aspirin and subarachnoid haemorrhage in patients with intracranial aneurysms yields different results to the general population

2021 ◽  
pp. 174749302110048
Author(s):  
Frederick Ewbank ◽  
Jacqueline Birks ◽  
Diederik Bulters
Keyword(s):  
General Population ◽  
Subarachnoid Haemorrhage ◽  
Confidence Intervals ◽  
Random Effects ◽  
Intracranial Aneurysms ◽  
Meta Analysis ◽  
Risk Of Bias ◽  
Random Effects Models ◽  
Hazard Ratios ◽  
Unruptured Intracranial Aneurysms

Abstract Background Some studies have shown a protective association between aspirin use and subarachnoid haemorrhage (SAH). Other studies have found no relationship or the reverse. These studies differ in their study populations and definitions of SAH. Aims Our aim was to establish 1) if there is an association between aspirin and SAH, 2) how this differs between the general population and those with intracranial aneurysms. Summary of review Studies reporting aspirin use and the occurrence of SAH were included and grouped based on population (general population vs aneurysm population). Odds ratios, hazard ratios and confidence intervals were combined in random-effects models. 11 studies were included. Overall, there was an association between aspirin and SAH (OR 0.68 [0.48, 0.96]). However, populations were diverse and heterogeneity between studies high (p<0.00001), questioning the validity of combining these studies and justifying analysis by population. In the general population there was no difference in aspirin use between individuals with and without SAH (OR 1.15 [0.96, 1.38]). In patients with intracranial aneurysms, aspirin use was greater in patients without SAH (OR 0.37 [0.24, 0.58]), although these studies were at higher risk of bias. Conclusions There is an association between aspirin use and SAH in patients with intracranial aneurysms. This apparent protective relationship is not seen in the general population. Prospective randomised studies are required to further investigate the effect of aspirin on unruptured intracranial aneurysms.

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