bluuebunny/crossref_metadata_2025_split huggingface dataset:
Extrarenal clinical features are reported for most genes implicated in genetic kidney disease
Authors: Serrano Benjamin , Savige Judy 
Published: January 2024

Abstract
Background: Genetic kidney disease is typically suspected where there is a positive family history or extrarenal features. This study examined how often these criteria might be expected in genetic kidney disease.
Methods: Two hundred and fifty-five genes from the Genomics England ‘green lists’ for Congenital Kidney Anomalies of the Kidney and Urinary Tract (CAKUT)(n=57), the Ciliopathies and Cystic kidney diseases (n=90), Haematuria (n=5), Renal proteinuria (n=55) and the Renal Tubulopathies (n=48) were examined for mode of inheritance and, in OMIM, for reported clinical features in different systems (neurological, cardiac etc) that would be obvious on history or physical examination.
Results: Biallelic inheritance alone was recorded for 148 of the 248 genes (60%) with an OMIM entry.
Extrarenal features were associated with 221 genes (89%) including those for Haematuria (5, 100%), Renal ciliopathies (86, 97%), CAKUT (52, 91%), Renal tubulopathies (41, 85%) and Proteinuric renal disease (37, 76%).
The median number of affected systems was 4 (range 0 – 10). More extrarenal features were associated with CAKUT (4, 0 – 10) and the Ciliopathies (5, 0 – 9) than for Haematuria (2, 2-5), Proteinuria (3, 0-7) and the Tubulopathies (3, 0-7) (p<0.00001).
The commonest systems affected were growth and musculoskeletal (164, 66%), neurological (147, 59%), and ocular (133, 54%).
Conclusions: The biallelic inheritance means that a family history is absent for many genes affected in genetic kidney disease. While extrarenal features are reported with most genes, extrarenal anomalies are more common in CAKUT and the ciliopathies. However data are limited on how often features occur in affected individuals.
The association between vitamin E intake, vitamin D intake and colorectal cancer: evidence from NHANES 2007–2018
Authors: Zhu Mengjia , Zhang Dian , Wang Xinjie , Chen Angli , Hu Weiling 
Published: January 2024

Abstract
Background: We aimed to investigate the relationship between dietary and supplemental intake of vitamin E and vitamin D and colorectal cancer (CRC) using the National Health and Nutrition Examination Survey (NHANES) data from 2007 to 2018 in the United States.
Method: Data from the NHANES database covering the period 2007 to 2018 were collected. Total vitamin D and vitamin E intake were determined using recall questionnaires for both dietary and dietary supplement intake. CRC patients were identified based on survey questionnaire data. To examine the relationship between vitamin E and vitamin D intake and CRC, we conducted weighted multivariate regression analysis and interaction analysis.
Results: Our study included a total of 27,635 participants, among whom 183 individuals (0.6%) were diagnosed with colorectal cancer. After adjusting for all covariates, multivariable logistic regression analysis indicated that total vitamin E intake was not associated with the occurrence of colorectal cancer (P > 0.05). The intake of total vitamin D was also unrelated to the likelihood of colorectal cancer (P > 0.05). Interaction tests revealed no significant impact of these relationships.
Conclusion: In summary, the intake of both vitamin D and vitamin E is not associated with the occurrence of colorectal cancer.
Automatic visual inspection of mechanical assemblies via 3Dpoint cloud classification with deep neural networks
Authors: Boughrara Assya , Jovančevic Igor , Dosljak Velibor , Orteu Jean-José , Belloc Mathieu 
Published: January 2024

Abstract
In this work, we are focused on conformity control of complex aeronautical mechanical assemblies,typically an aircraft engine, at the end or in the middle of the assembly process. A 3D scannercarried by a robot arm provides acquisitions of 3D point clouds which are further processed by deepclassification neural networks. The Computer-Aided Design (CAD) model of the inspected mechanicalassembly is available, and the proposed approach relies on it. The models are trained on syntheticdata, generated from the CAD models.
A Music Score Segmentation Method Based on Deconstruction And Reconstruction
Authors: Jiang Tianhao , Zhang Chi , Wang Zhong 
Published: January 2024

Abstract

Optical music recognition (OMR), which focus on digitizing and translating music score images, has been studied for some decades. However, some OMR processing, which is aimed at recognizing a whole music score image, still has low accuracy. We propose DAR, a music score segmentation method based on deconstruction and recon- struction, by which measures can be extracted through a series of operations instead of a single model, which can improve accuracy without a large amount of data. We also introduce a method to determine the accuracy of measure segmentation, which can show the advantage of our method.
Identification and study of Prolyl Oligopeptidases and related sequences in bacterial lineages
Authors: Nayak Soumya , Sowdhamini Ramanathan 
Published: January 2024

Abstract

Background:
Proteases are enzymes that break down proteins, and serine proteases are an important subset of these enzymes. Prolyl oligopeptidase (POP) is a family of serine proteases that has ability to cleave peptide bonds involving proline residues and it is unique for its ability to cleave various small oligopeptides shorter than 30 amino acids. The S9 family from MEROPS database, which includes POP, is classified into four subcategories based on active site motifs. These protease subfamilies assume a crucial position owing to their diverse biological roles and potential therapeutic applications in various diseases.
Results:
In this study, we have examined ~32000 completely annotated bacterial genomes from the NCBI RefSeq Assembly database using computational techniques to identify annotated S9 family proteins. This results in the discovery of 61,660 bacterial genes that contain domains and sequence signatures of S9 family members (referred to as POP homologues). We have classified these sequences into distinct subfamilies through machine learning approaches and conducted a comprehensive analysis of their distribution across various phyla and species. We notice significant enrichment of POP homologues in distinct phyla and species.
All bacterial phyla showed diverse domain architecture in genes containing S9 family domains.
Distinct subclusters and class-specific motifs were identified, using phylogeny and motif-finding, suggesting difference in substrate specificity in POP homologues.
Conclusions:
We present a comprehensive study presenting the distribution, classification and domain architecture of S9 family proteins. In addition, our study also demonstrate that, despite belonging to same subfamily (S9A), POPs can be different in their substrate and substrate binding capabilities. This can enable future research of these gene families that are involved in many important biological processes.
Intermittent intravenous paracetamol versus continuous morphine in infants undergoing cardiothoracic surgery: a multi-center randomized controlled trial
Authors: Zeilmaker-Roest Gerdien , de Vries-Rink Christine , Rosmalen Joost van , Dijk Monique van , de Wildt Saskia N. , Knibbe Catherijne A. J. , Koomen Erik , Jansen Nicolaas J. G. , Kneyber Martin C. J. , Maebe Sofie , Berghe Greet van den , Haghedooren Renata , Vlasselaers Dirk , Bogers Ad J.J.C. , Tibboel Dick , Wildschut Enno D. 
Published: January 2024

Abstract

Background To determine whether intermittent intravenous (IV) paracetamol as primary analgesic would significantly reduce morphine consumption in children aged 0–3 years after cardiac surgery with cardiopulmonary bypass.Methods Multi-center, randomized, double-blinded, controlled trial in four level-3 Pediatric Intensive Care Units (PICU) in the Netherlands and Belgium. Inclusion period; March 2016 - July 2020. Children aged 0–3 years, undergoing cardiac surgery with cardiopulmonary bypass were eligible. Patients were randomized to continuous morphine or intermittent IV paracetamol as primary analgesic after a loading dose of 100 mcg/kg morphine was administered at the end of surgery. Rescue morphine was given if Numeric Rating Scale (NRS) scores for pain exceeded predetermined cutoff values. Primary outcome was weight-adjusted cumulative morphine dose in mcg/kg in the first 48 hours post-operative. For the comparison of the primary outcome between groups, the non-parametric Van Elteren test with stratification by center was used.Results In total, 828 were screened and finally 208 patients were included; parents of 315 patients did not give consent and 305 were excluded for various reasons. One hundred and two patients received intermittent IV paracetamol, 106 received continuous morphine. The median cumulative morphine consumption in the first 48 hours postoperative in the IV paracetamol group was 5 times lower (79%) than that in the morphine group (median, 145.0 (IQR, 115.0-432.5) mcg/kg vs 692.6 (IQR, 532.7- 856.1) mcg/kg ; P < 0.00001). The rescue morphine consumption was similar between the groups (p = 0.38). Non-inferiority analysis of IV paracetamol showed no differences between groups in number of NRS scores indicating pain (p = 0.61).Conclusions In children aged 0–3 years undergoing cardiac surgery, use of intermittent IV paracetamol reduces the weight-adjusted cumulative morphine consumption in the first 48 hours after surgery by 79% with equal pain relief showing equipoise for IV paracetamol as primary analgesic.Trial Registration Clinicaltrials.gov, Identifier: NCT05853263; EudraCT Number: 2015-001835-20.
Preparation, Investigation, and Comparison of Nickel-Agarose Coated Adsorbent Immobilized by Cibacron Blue Dye Ligand
Authors: Mofidian Roozbeh , Jahanshahi Mojtaba 
Published: January 2024

Abstract
In this study, we looking forward to a method to obtain the best formula to make an agarose-coated adsorbent. Determining the type and number of experiments was designed by Taguchi software and our variables included stirring speed, agarose concentration, nickel dosage, and surfactant percentage. 2@NAC-CB particles have been prepared by three phase emulsion method. The results showed that the particle size decreases with increasing stirring speed, despite increasing the initial concentration of the surfactant led to a decrease in the size of the adsorbent particles. However, by increasing the surfactant concentration and stirring speed, the best result was obtained at 4% surfactant concentration and 950 rpm speed. The behavior of agarose-coated adsorbent in different conditions was calculated by measuring the bed expansion coefficient and the axial dispersion coefficient for the slurry phase when measured in a standard coupling. Also, the agarose coating of the metal core has been investigated to produce different geometries in the construction of suitable adsorbents for the purification of numerous protein products. The final result showed that the production of spherical porous adsorbent nanoparticles from natural protein in the above method can be widely used for protein purification in the industry.
Identification of the modal parameters of a concrete bridge deck using traffic loads
Authors: Talebi Meisam , Tabrizian Zahra , Amiri Gholamreza Ghodrati 
Published: January 2024

Abstract
Structural health monitoring has increased in recent decades and several methods have been introduced for this purpose. Most non-destructive structural damage detection methods are based on vibration response processing and changes in the structural parameters. For long-term health monitoring of structures, it is more practical to use operational loads as the vibration source. This article presents a method that processes the forced vibration response to different loading conditions for identification of the modal parameters of a concrete bridge deck under traffic loading. In this methodology, the free vibration response of the concrete bridge deck has been estimated using the random decrement technique based on empirical mode decomposition. The natural frequencies and mode shapes of the concrete bridge deck have been predicted using frequency domain decomposition. The proposed method has been validated using numerical models of 2D and 3D concrete bridge decks and investigation of the effects of the load path and speed of moving loads for different loading scenarios. The results show that the proposed method is reliable for modal identification of a concrete bridge deck under traffic loads and that more complex load patterns which are closer to real conditions leads to more accurate modal parameters. In addition, the degrees of freedom adjacent to the load path produce more precise results.
Daphnetin improved URSA model mice fertility by regulating the imbalance of Th17/Treg cells
Authors: Long Shenggen , Zhang Zhiqin , Tan Jun 
Published: January 2024

Abstract
We have previously reported daphnetin had a positive effect on improving the balance of T helper 17 (Th17) cells and Foxp3 + regulatory T cells (Treg) in the peripheral blood mononuclear cells from patients with unexplained recurrent pregnancy loss, but its definite mechanism remains elusive. This study aims to deeply explore the regulatory effect of daphnetin on the imbalance of Th17/Treg cells in the unexplained recurrent spontaneous abortion (URSA) model mice. Forty mice were divided into four groups: normal pregnancy (control), URSA model, daphnetin low dose (1mg/ (kg· day) and daphnetin high dose (4mg/ (kg· day). The proportion of Th17/Treg cells in peripheral blood mononuclear cells (PBMCs) was detected by flow cytometry. The level expression of orphan nuclear receptor γ t (RORγt), signal transduction and transcriptional activator 3 (STAT3), forked transcription factor P3 (FoxP3) and signal transduction and transcriptional activator 5 (STAT5) in decidual tissues were detected by real-time PCR. Then, we alculated Embryo absorption rate and observed the ultrastructural changes of decidual tissues by transmission electron microscope. Compared with the URSA model group, daphnetin significantly decreased the ratio of Th17/Treg in PBMCs. At the same time, daphnetin decreased the expression of Th17-related cytokines RORγt and STAT3 and increased the expression of Treg-related cytokines FoxP3 and STAT5. What's more, daphnetin decreased the absorption rate of embryo and improved the ultrastructure of decidual tissue of URSA model mice. The above data showed that daphnetin could improve the imbalance of Th17/Treg cells of URSA model mice by regulating RORγt, STAT3, FoxP3 and STAT5, which finally repair damaged decidual tissue and decrease the absorption rate of embryo of URSA model mice. Daphnetin may provide a new approach for URSA treatment in the future.
Investigating the Impact of Pillar Shape on Flexible Erythrocyte Separation through Deterministic Lateral Displacement
Authors: Wu Jiangbo , Zhang Wenyu , Du Xiaoze , Liu Jie , lv Yao , He Yongqing 
Published: January 2024

Abstract
The deterministic lateral displacement (DLD) method has gradually moved beyond the separation of spherical rigid particles and has been successfully applied to the field of biological cells, especially to the separation of disc-shaped flexible erythrocytes. Different shapes of micropillars in the DLD device significantly affect the sorting performance of erythrocytes. We investigated the effect of the flow field in the gap of micropillars of different shapes (circular, triangular, I-shaped) on the behavior of erythrocyte tumbling motion. The simulation results showed that in the I-shaped pillar DLD device, compared with the circular and triangular pillars, the erythrocytes exhibited a stable and continuous flipping motion during the movement along the array offset direction, which enabled the effective separation size to be maintained at a high level. In addition, the formula for calculating the critical diameter of the I-shaped pillar DLD array for separating erythrocytes was obtained by fitting, which provides strong support for more efficient design of the I-shaped pillar DLD device dedicated to erythrocyte sorting.
Influence of Composite Sediment fingerprinting in identifying the sources of suspended sediments of a semiarid reservoir
Authors: Shanmugam Jagannathan , Mookiah Mathiazhagan , Karuppanan Saravanan 
Published: January 2024

Abstract
Sediment source fingerprinting is intended to provide the source of the sediment carried in fluvial systems. The suspended sediment load carried by a river or stream will be a mixture of sediment from many sources and sites within the contributing catchment. This study uses sediment fingerprinting approach to investigate the sources of sediments into the wellington reservoir of Tamilnadu, India. The sediment samples were analyzed for several potential fingerprint characteristics in the laboratory. By comparing the fingerprint of the sediment sources using multivariate mixing model, the contributions from each sources were ascertained. The uncertainty from the mixing model was quantified using Monte Carlo method. The sediment fingerprinting results indicate that Agriculture lands contributes higher amount of sediments 56.01%, followed by Fallow lands with 28.24% of sediments and Forests with 15.69% of sediments. The montecarlo uncertainty analysis reveals the average error of 2% in the suspended sediment samples. The results helps in understanding the potential regions of soil erosion that should be considered for watershed management against sedimentation.
Development and Characterization of Sodium Alginate/Gum Arabic Beads using Encapsulation Technique with Dimocarpus longan Extracts for Food Industry
Authors: Fuangchoom Varunya , Narkprasom Nukrob , Jaturonglumlert Somkiat , Varith Jaturapatr , Ramaraj Rajeswaran , Rattanawongwiboon Thitirat , Narkprasom Kanjana 
Published: January 2024

Abstract
Encapsulation can be accomplished by a variety of methods. Extrusion is used to obtain granules with encapsulated liquid active ingredients for food and pharmaceutical applications and has been used for volatile active compounds. This work aimed to study the microencapsulation of the total phenolic compound of longan extract through the extrusion method. According to the findings of the study of the encapsulation process of longan extract, the optimized condition of longan beads was 1.5% sodium alginate and 4% calcium chloride. Under these conditions, the total phenolic compound, antioxidant activity, and encapsulation efficiency of longan extract beads were 3.845 mgGAE/gbead, 55.06%, and 66.95%, respectively. A study of the combination of sodium alginate with natural polymers (gelatin, pectin, and gum arabic) found that alginate/gum Arabic longan beads had the highest encapsulation efficiency of 74.86 ± 0.171%. The effect of pH on the stability of total phenolic compounds (pH 2, 5, and 8) found that longan beads exhibited good stability under acidic conditions were studied. Finally, to study the effect of gamma irradiation on sterilization and the physical of longan beads, A gamma irradiation dose of 7.5 kGy could effectively sterilize microorganisms and strengthen the longan beads. These results indicate that longan beads can produce beads rich in phenolic compounds that can be used as natural supplements and antioxidants in various food products.
Enhancing the blast resistance of an elite thermo-sensitive genic male sterile line (TGMS) Longke638S and its derived hybrid varieties by incorporating Pigm gene
Authors: Wang Kai , Fu Chenjian , Fu Xingxue , Qin Peng , Hu Xiaochun , Zhang Xuanwen , Deng Zhao , Yan Tianze , Jiang Nan , Li Yanfeng , Fu Jun , Deng Yiwen , Zhou Yanbiao , Xiao Gui , He Zuhua , Yang Yuanzhu 
Published: January 2024

Abstract

Rice blast, caused by the fungus Magnaporthe oryzae, is one of the most destructive diseases of rice worldwide. The utilization of host resistance (R) genes in rice breeding program is considered as the most economical, effective, environment-friendly strategy for rice blast control. The R gene Pigm, shows high, broad-spectrum and durable resistance to rice blast. Here, we report the successful integration of Pigm into Longke638S (LK638S), an elite thermo-sensitive genic male sterile (TGMS) line in hybrid rice production in China. The integration significantly enhanced the blast resistance of LK638S and the derived hybrid varieties demonstrated exceptional performance in both yield and blast resistance. The improved line Longzhen36S (LZ36S), which recovered 91.84% of the recurrent parent genome. LZ36S exhibited a high blast resistance frequency of 96.4% against 28 blast isolates. Furthermore, the LZ36S-derived hybrids exhibited enhanced resistance to both seedling and panicle blast compared to LK638S-derived hybrids carrying the heterozygous Pi2 gene, all without yield penalty. A total of ninety LK638S derived hybrid varieties have been state or provincial approved and certified with an annual promoting area exceed 964.0 thousand hectares. The LZ36S-derived hybrids can serve as improved versions with enhanced blast resistance, making them viable replacements for LK638S-derived hybrids in commercial production. Moreover, sixteen LZ36S-derived hybrid varieties, all possessing moderate (MR) or high (R) level blast resistance, along with excellent yield and grain quality, have been state or provincial approved and certificated. These LZ36S-derived hybrids show great potential for rapid commercialization, with promoting area of ~ 200 thousand hectares by 2023.
An Impact of Thermal Radiation and Brinkman Ratio on MHD Flows Due to Shrinking/Stretching Sheet with Multiple Slips and CNTs
Authors: Mahabaleshwar U. S. , Mahesh R. , Bognár G , Oztop Hakan F. 
Published: January 2024

Abstract

This paper analytically solves the Newtonian fluid movement over a semi-infinite porous expanding/contracting boundary with multiple slips in the company of carbon nanotubes (CNTs), thermal radiation, and a magnetic field. There are two distinct kinds of CNT models used, namely single-walled CNTs (SWCNT) and multiple-walled CNTs (MWCNT), with the possibility of fluid sliding in accordance with Navier’s and second-order slips. The dimensionless and similarity transformations with the radiative heat flux approximation are applied to the transformation of governing equations into ordinary differential equations (ODEs). Since the flow field solution contains a shift exponential function, the balanced heat equation between temperature and thermal radiation leads to a linear ODE with exponential-type coefficients. The result of the energy equation is then expressed as a function of incomplete gamma functions using the Laplace transform. Significant performances of SWCNTs and MWCNTs to the fluid flow and heat transfer are evaluated by varying physical parameters such as Prandtl number, Brinkman ratio, viscosity ratio, thermal radiation, and multiple slip parameters. These findings have industrial applications, such as polymer manufacture and oil extraction, as well as medicinal applications.