Category: Statistics

J Pharm Biomed Anal. 2021 Aug 25;205:114333. doi: 10.1016/j.jpba.2021.114333. Online ahead of print.

ABSTRACT

Several metabolomics-derived biomarkers of prostate cancer (PC) have been reported with pre-radical prostatectomy (RP) (knock-in PC) conditions; however, uncontested PC biomarkers panel appraisal and investigation of correlative evidence of these measures is lacking through post-RP (knock-out PC). We sought to explore patients’ filtered serum-based metabolomics derived signature measures in knock-in PC (n = 90) using nuclear magnetic resonance spectroscopy and multiple rigorous statistical analyses, and to develop the correlative evidence of these measures through knock-out PC (n = 90) follow-up on the 15th and 30th days. The glutamate, citrate and glycine were observed as hallmarks of PC. Observed trends revealed; augmented glutamate level in knock-in PC following a sudden drop and subsequently upside of glutamate at 15th and 30th days of knock-out PC, reduction of citrate in knock-in PC subsequently gradual increase of citrate in knock-out PC, and glycine lessening in knock-in PC following augmentation on 30th day of knock-out PC. This study-based evidence clears the doubts regarding the discovery of metabolomics-derived PC biomarkers.

PMID:34461489 | DOI:10.1016/j.jpba.2021.114333

J Contam Hydrol. 2021 Aug 12;243:103867. doi: 10.1016/j.jconhyd.2021.103867. Online ahead of print.

ABSTRACT

The earth texture with complex morphological geometry and compositions such as shale and carbonate rocks, is typically characterized with sparse field samples because of an expensive and time-consuming characterization process. Accordingly, generating arbitrary large size of the geological texture with similar topological structures at a low computation cost has become one of the key tasks for realistic geomaterial reconstruction and subsequent hydro-mechanical evaluation for science and engineering applications. Recently, generative adversarial neural networks (GANs) have demonstrated a potential of synthesizing input textural images and creating equiprobable geomaterial images for stochastic analysis of hydrogeological properties, for example, the feasibility of CO₂ storage sites and exploration of unconventional resources. However, the texture synthesis with the GANs framework is often limited by the computational cost and scalability of the output texture size. In this study, we proposed a spatially assembled GANs (SAGANs) that can generate output images of an arbitrary large size regardless of the size of training images with computational efficiency. The performance of the SAGANs was evaluated with two and three dimensional (2D and 3D) rock image samples widely used in geostatistical reconstruction of the earth texture and Lattice-Boltzmann (LB) simulations were performed to compare pore-scale flow patterns and upscaled permeabilities of training and generated geomaterial images. We demonstrate SAGANs can generate the arbitrary large size of statistical realizations with connectivity and structural properties and flow characteristics similar to training images, and also can generate a variety of realizations even on a single training image. In addition, the computational time was significantly improved compared to standard GANs frameworks.

PMID:34461459 | DOI:10.1016/j.jconhyd.2021.103867

Prev Vet Med. 2021 Aug 19;195:105470. doi: 10.1016/j.prevetmed.2021.105470. Online ahead of print.

ABSTRACT

Small-scale farming of meat chicken flocks using local native breeds contributes to the economy of many rural livelihoods in Vietnam and many other low- and middle-income countries (LMICs). These systems are also the target of high levels of antimicrobial use (AMU); however, little is known about the profitability and sustainability of such systems. Since small-scale farms are commercial enterprises, this knowledge is essential to develop successful strategies to curb excessive AMU. Using longitudinal data from 203 small-scale (100-2,000 heads) native chicken flocks raised in 102 randomly selected farms in Dong Thap province (Mekong Delta, Vietnam), we investigated the financial and economic parameters of such systems and the main constraints to their sustainability. Feed accounted for the largest financial cost (flock median 49.5 % [Inter-quartile range (IQR) 41.5-61.8 %]) of total costs, followed by day-old-chicks (DOCs) (median 30.3 % [IQR 23.2-38.4 %]), non-antimicrobial health-supporting products (median 7.1 % [IQR 4.7-10.5 %]), vaccines (median 3.1 % [IQR 2.2-4.8 %]), equipment (median 1.9 % [IQR 0.0-4.9 %]) and antimicrobials (median 1.9 % [IQR 0.7-3.6 %]). Excluding labor costs, farmers achieved a positive return on investment (ROI) from 120 (59.1 %) flocks, the remainder generating a loss (median ROI 124 % [IQR 36-206 %]). Higher ROI was associated with higher flock size and low mortality. There was no statistical association between use of medicated feed and flock mortality or chicken bodyweight. The median daily income per person dedicated to raising chickens was 202,100 VND, lower than alternative rural labor activities in the Mekong Delta. In a large proportion of farms (33.4 %), farmers decided to stop raising chickens after completing one cycle. Farmers who dropped off chicken production purchased more expensive feed (in 1000 VND per kg): 11.1 [10.6-11.5] vs. 10.8 [10.4-11.3] for farms that continued production (p = 0.039), and experienced higher chicken mortality (28.5 % [12.0-79.0 %] vs. 16 [7.5-33.0 %]; p = 0.004). The rapid turnover of farmers raising chickens in such systems represents a challenge to the uptake of messages on appropriate AMU and chicken health. To ensure sustainability of small-scale commercial systems, advisory services need to be available to farmers as they initiate new flocks, and support them in the early stages to help overcome their limited experience and skills. This targeted approach would support profitability whilst reducing risk of emergence of AMR and infectious disease from these systems.

PMID:34461467 | DOI:10.1016/j.prevetmed.2021.105470

Sci Total Environ. 2021 Aug 24;802:149727. doi: 10.1016/j.scitotenv.2021.149727. Online ahead of print.

ABSTRACT

This is the first study to show microplastics contamination in an alluvial sedimentary aquifer that has been capped from the atmosphere. Microplastics are often reported in biotic and abiotic environments, but little is known about their occurrence in groundwater systems. In this study, eight of the most commonly found microplastics in the environment (polyethylene, PE; polystyrene, PS; polypropylene, PP; polyvinyl chloride, PVC; polyethylene terephthalate, PET; polycarbonate, PC; polymethylmethacrylate, PMMA; and polyamide, PA) were analysed in triplicate groundwater samples (n = 21) from five sampling sites across seven capped groundwater monitoring bores from Bacchus Marsh (Victoria, Australia) using Agilent’s novel Laser Direct Infra-Red (LDIR) imaging system. Microplastics were detected in all samples, with PE, PP, PS and PVC detected in all seven bores. The average size of the microplastics identified was 89 ± 55 μm (St.Dev.), ranging from 18 to 491 μm. The average number of microplastics detected across all sites was 38 ± 8 microplastics/L, ranging from 16 to 97 particles/L. PE and PVC in total contributed to 59% of the total sum of microplastics detected. PE was consistently detected in all seven bores (average: 11 particles/L), while PVC was more pronounced in a bore adjacent to a meat processor (52 particles/L) compared to that of its overall average of 12 particles/L. A statistically significant positive correlation was observed between PVC and PS (R = 0.934, p ≤0.001). As this study collected samples from capped groundwater bores, the most probable avenue for microplastics was permeation through soil. Therefore, to further understand the fate and transport of microplastics within a groundwater system, it is necessary to analyse a greater range of groundwater bores not only from Australia but throughout the world.

PMID:34461481 | DOI:10.1016/j.scitotenv.2021.149727

Public Health. 2021 Aug 3;198:164-170. doi: 10.1016/j.puhe.2021.07.030. Online ahead of print.

ABSTRACT

OBJECTIVES: COVID-19 pandemic affected majority of students worldwide because school closures were one of the first and frequently taken measures in tackling epidemic. This study analyzed trends in COVID-19 morbidity and mortality from the beginning of pandemic in Croatia, in relation to schools opening and closing.

STUDY DESIGN: Retrospective data review.

METHODS: Data on COVID-19 positive patients in Croatia from week 9 of 2020 to week 10 of 2021 in Croatia were analyzed using joinpoint regression. Analysis also included hospitalizations and mortality trends for age groups 26 to 65 and 66+ from week 30 of 2020.

RESULTS: Schools opened in fall after the summer holidays in week 37. Joinpoint regression analysis revealed a statistically significant increase in cumulative incidence rates of COVID-19 in all age groups until 50th week, except in the 19-25 age group which saw an increase until 49th week. During the period of increase, there were periods of moderate increases and rapid increases in incidence that were present between 39/41 week and 43/44 week in all age groups except in those 0-6 years [from 40th till 43rd week in age groups 7-14 and 15-18, average percentage change (APC) = 87.41, P = 0.035, and APC = 83.47, P = 0.013; from 39th till 43rd in 19-25, APC = 91.90, P = 0.002; from 40th till 44th in 26-65, APC = 74.79, P < 0.001; from 41st till 44th in 66+, APC = 81.95, P = 0.004]. Steeper increase in hospitalizations was seen in 40th week for age groups 26 to 65 (40th to 45th week APC = 34.67, P < 0.001) and 66+ (40th to 45th week APC = 38.76, P < 0.001). Steeper increase in mortality started in 41st week for both age groups 26 to 65 and 66+ (41st to 46th week APC = 59.59, P < 0.001 and 41st to 45th week APC = 70.28, P < 0.001). Schools were closed for winter holidays in week 51. A steep decrease occurred in week 50 for cases and in week 51 for mortality and hospitalizations. There was no significant increase in hospitalizations and mortality after schools were re-opened in week 03 of 2021 (primary schools) and week 07 (secondary schools).

CONCLUSION: COVID-19 morbidity and mortality trends in Croatia observed in fall 2020 in Croatia perhaps cannot completely exclude potential association of school opening in all age groups. However, in winter 2021 effect was completely lacking and numbers were independent of schools’ dynamics. The observed inconsistent pattern indicates that there were no association of school openings and COVID-19 morbidity and mortality trends in Croatia and that other factors were leading to increasing and decreasing numbers. This emphasizes the need to consider the introduction of other effective and less harmful measures by stakeholders, or at least to use school closures as a last resort.

PMID:34461449 | DOI:10.1016/j.puhe.2021.07.030

Arch Oral Biol. 2021 Jul 29;131:105220. doi: 10.1016/j.archoralbio.2021.105220. Online ahead of print.

ABSTRACT

OBJECTIVE: To investigate the salivary metaproteomic characteristics of the children with and without severe early childhood caries (S-ECC).

DESIGN: In this study, we collected unstimulated saliva samples from 34 children (age 3-4 years) with caries free (NC, dmfs (= index of decayed, missing due to caries, or filled tooth surfaces) = 0, n = 23) and with S-ECC (dmfs≥10, n = 11). Salivary proteins were extracted and reduced, and then a Liquid Chromatography/Mass Spectrometry system was used to identify proteins.

RESULTS: Nearly 3000 proteins were identified in this study, and about 3.5 % of the proteins originated from human while 86 % were derived from microbes. The salivary protein types in the NC group were statistically greater than those in the S-ECC group (P <0.05). Specifically, the salivary protein types derived from microbes in the NC group were significantly greater than those in the S-ECC group. Three proteins, human lactoferrin, penicillin-binding protein 1C [Burkholderia ubonensis], human alpha-defensin 1 (F28a mutant), were decreased statistically in the NC group compared to the S-ECC group (P < 0.05). Only one protein, 50S ribosomal protein L17 secreted by Haemophilus haemolyticus, was significantly increased in the NC group compared to the S-ECC group. Salivary IgA was the top highest protein in the NC group whereas human lysozyme was the top highest protein in the S-ECC group.

CONCLUSIONS: The differential proteins recognized in this study may be conducive for finding a caries biomarker. Understanding the metaproteomic characteristics can help us to control the caries from human origin and microbial origin.

PMID:34461447 | DOI:10.1016/j.archoralbio.2021.105220

Accid Anal Prev. 2021 Aug 27;161:106351. doi: 10.1016/j.aap.2021.106351. Online ahead of print.

ABSTRACT

Cyclists and pedestrians account for a disproportionate amount of the world’s 1.3 million road deaths every year. This is a growing problem in the United Sates where bicyclist and pedestrian fatalities have increased steadily since 2009. A large body of research suggests vehicle speeds are a key contributing factor for crashes. However, few studies of bicycle or pedestrian crash probability incorporate detailed vehicle speed data. This study uses probe vehicle speed data to examine the impact of vehicle speeds on bicycle and pedestrian crashes on the state of Georgia’s network of major arterial roadways. The analysis examines 7000 road segments throughout the state in 2017. A Negative Binomial model relates annual crash and speed data on each segment. Models using speed percentiles (85th, 50th and 15th) are contrasted with models using speed differences (85th-50th and 50th-15th percentile). A small set of covariates are included: segment length, number of lanes, Average Annual Daily Traffic, and urbanicity. Results indicate that larger differences in high-end speed percentiles are positively associated with bicycle and pedestrian crash frequency on Georgia arterials. Furthermore, the coefficients on the high end of the speed distribution, measured by the difference in 85th and 50th percentile speeds, have greater magnitude and statistical significance than the low end of the distribution. This research shows a negative relationship between speed and crashes may be flawed, as it does not account for the distributions of speed. The findings in this study suggest that planners and engineers should identify areas with large speed distributions, especially at the high vehicle speeds, and work to reduce the fastest speeds on these roadways. To do so, differences in speed percentiles measured using probe vehicle speeds can be used to determine where high risk areas are located.

PMID:34461395 | DOI:10.1016/j.aap.2021.106351

Neuroimage Clin. 2021 Aug 21;32:102787. doi: 10.1016/j.nicl.2021.102787. Online ahead of print.

ABSTRACT

Misophonia is a condition in which specific ordinary sounds provoke disproportionately strong negative affect and physiological arousal. Evidence for neurobiological abnormalities underlying misophonia is scarce. Since many psychiatric disorders show white matter (WM) abnormalities, we tested for both macro and micro-structural WM differences between misophonia patients and healthy controls. We collected T1-weighted and diffusion-weighted magnetic resonance images from 24 patients and 25 matched controls. We tested for group differences in WM volume using whole-brain voxel-based morphometry and used the significant voxels from this analysis as seeds for probabilistic tractography. After calculation of diffusion tensors, we compared group means for fractional anisotropy, mean diffusivity, and directional diffusivities, and applied tract-based spatial statistics for voxel-wise comparison. Compared to controls, patients had greater left-hemispheric WM volumes in the inferior fronto-occipital fasciculus, anterior thalamic radiation, and body of the corpus callosum connecting bilateral superior frontal gyri. Patients also had lower averaged radial and mean diffusivities and voxel-wise comparison indicated large and widespread clusters of lower mean diffusivity. We found both macro and microstructural WM abnormalities in our misophonia sample, suggesting misophonia symptomatology is associated with WM alterations. These biological alterations may be related to differences in social-emotional processing, particularly recognition of facial affect, and to attention for affective information.

PMID:34461433 | DOI:10.1016/j.nicl.2021.102787

Dev Cogn Neurosci. 2021 Aug 26;51:101010. doi: 10.1016/j.dcn.2021.101010. Online ahead of print.

ABSTRACT

When learning a new language, one must segment words from continuous speech and associate them with meanings. These complex processes can be boosted by attentional mechanisms triggered by multi-sensory information. Previous electrophysiological studies suggest that brain oscillations are sensitive to different hierarchical complexity levels of the input, making them a plausible neural substrate for speech parsing. Here, we investigated the functional role of brain oscillations during concurrent speech segmentation and meaning acquisition in sixty 9-year-old children. We collected EEG data during an audio-visual statistical learning task during which children were exposed to a learning condition with consistent word-picture associations and a random condition with inconsistent word-picture associations before being tested on their ability to recall words and word-picture associations. We capitalized on the brain dynamics to align neural activity to the same rate as an external rhythmic stimulus to explore modulations of neural synchronization and phase synchronization between electrodes during multi-sensory word learning. Results showed enhanced power at both word- and syllabic-rate and increased EEG phase synchronization between frontal and occipital regions in the learning compared to the random condition. These findings suggest that multi-sensory cueing and attentional mechanisms play an essential role in children’s successful word learning.

PMID:34461393 | DOI:10.1016/j.dcn.2021.101010

Oper Neurosurg (Hagerstown). 2021 Aug 30:opab303. doi: 10.1093/ons/opab303. Online ahead of print.

ABSTRACT

BACKGROUND: Odontoidectomy is a challenging yet effective operation for decompression of non-neoplastic craniovertebral junction disease. Though both the endoscopic endonasal approach (EEA) and the transoral approach (TOA) have been discussed in the literature, there remain few direct comparisons between the techniques.

OBJECTIVE: To evaluate the perioperative outcomes of EEA vs TOA odontoidectomy.

METHODS: A retrospective review of all cases undergoing odontoidectomy by either the EEA or TOA was performed. Attention was paid to the need for prolonged nutritional support, prolonged respiratory support, and hospitalization times.

RESULTS: During the study period between 2000 and 2018, 25 patients underwent odontoid process resection (18 TOA and 7 EEA). The most common indication for surgery was basilar invagination. Hospital length of stay, intensive care unit length of stay, and intubation days were all significantly shorter in the EEA group compared to the TOA group (P < .01, P = .01, P < .01, respectively). Prolonged nutritional support in the form of a gastrostomy tube was required in 5 patients and tracheostomy was required in 4 patients; all of these underwent odontoidectomy by the TOA. There was no statistical difference in neurological outcomes between the EEA and TOA groups (P = .17).

CONCLUSION: Odontoidectomy can be performed safely through both the EEA and TOA. The results of this study suggest the EEA has shorter hospitalizations and a lower probability of requiring prolonged nutritional support. These advantages are likely the results of decreased oropharyngeal mucosa disruption as compared to the TOA.

PMID:34460927 | DOI:10.1093/ons/opab303