bluuebunny/crossref_metadata_2025_split huggingface dataset:
Plate-based ISSAAC-seq for multimodal profiling of chromatin accessibility and gene expression in single cells
Authors: Xu Wei , Chen Yawen , Hu Yukun , Chen Xi 
Published: May 2024

Abstract

Here, we described a step-by-step protocol for plate-based in situ SHERRY after ATAC-seq (ISSAAC-seq), a highly sensitive and flexible single cell multi-omics method to interrogate chromatin accessibility and gene expression from the same single nucleus. ISSAAC-seq is based on the combination of the recently developed Sequencing HEteRo RNA-DNA-hYbrid (SHERRY) and previously established scATAC-seq approaches, and compatible with both plate-based formats and droplet microfluidics. Plate-based ISSAAC-seq is suitable for small scale preliminary tests at low cost. Main reactions in this protocol are performed in bulk, then single cells were isolated using FACS. Generally, it obtains data quality of ~10,000 ATAC reads in peaks and 2000-5000 detected genes per cell. Library construction for ISSAAC-seq could be completed in 1-2 days. This protocol is related to the publication “ISSAAC-seq enables sensitive and flexible multimodal profiling of chromatin accessibility and gene expression in single cells” in Nature Methods.
“Development and Feasibility Testing of Supported Housing Programme on Independent Living Skills of Homeless Women with Severe Mental Illness: A Prospective Study”
Authors: Lydia.V  , Jagannathan Aarti , Thirthalli Jagadisha , L Ponnuchamy 
Published: May 2024

Abstract

Homelessness and mental illness are inextricably linked and this bidirectional phenomenon forms a vicious circle from which an escape seems complicated. One of the most pertinent needs of the HWSMI when they recover from mental illness is to return to their families. However, catering to this need has been challenging due to several reasons. HWSMI, when institutionalized get trapped in a system that reduces access to normative resources and solidifies social withdrawal. In this context, we aim to develop a supported housing program (SHP) for HWSMI & examine the effect of SHP on their Independent Living Skills.
Comparative evaluation of canal transportation, centering ability, and remaining dentin thickness between Race Evo and Protaper Next Rotary systems by using CBCT in mesial curved root canals of mandibular molar teeth
(A comparative inVitro Study)
Authors: Ashkar Ahmed El , sadik Hany samy 
Published: May 2024

Abstract

The aim of this study is to assess the shaping ability of Race Evo files system in comparison to Protaper Next files System (X1 #17/.04, X2 #25/.06) by evaluating: The canal transportation, centering ability, and the remaining dentin thickness in curved root canals at three root levels (apical, middle, and coronal) using CBCT.
Direct Biomolecule Discrimination in Mixed Samples using Nanogap-Based Single-Molecule Electrical Measurement
Authors: Ryu Jiho , Komoto Yuki , Oshiro Takahito , Taniguchi Masateru 
Published: May 2024

Abstract

In single-molecule measurements, metal nanogap electrodes directly measure the current of a single molecule. This technique has been actively investigated as a new detection method for a variety of samples. Machine learning has been applied to analyze signals derived from single molecules to improve the identification accuracy. However, conventional identification methods have drawbacks, such as the requirement of data to be measured for each target molecule and the electronic structure variation of the nanogap electrode. In this study, we report a technique for identifying molecules based on single-molecule measurement data measured only in mixed sample solutions. Compared with conventional methods that require training classifiers on measurement data from individual samples, our proposed method successfully predicts the mixing ratio from the measurement data in mixed solutions. This demonstrates the possibility of identifying single molecules using only data from mixed solutions, without prior training. This method is anticipated to be particularly useful for the analysis of biological samples in which chemical separation methods are not applicable, thereby increasing the potential for single-molecule measurements to be widely adopted as an analytical technique.
Unveiling the Lead-Lag Relationship Among Metal Derivatives in the Multi Commodity Exchange (MCX) of India: A Comprehensive Analysis
Authors: Arcot Purna Prasad , Naidu B.Diwakar 
Published: May 2024

Abstract

This research paper delves into the substantial impact of commodity exchanges in India on the economy, specifically focusing on the areas of improved price discovery and the facilitation of systematic derivatives trading. Market participants, including hedgers and traders, effectively utilize futures contracts as strategic tools to control prices and capitalize on market volatility. Both agricultural and non-agricultural products are actively traded in the spot and futures markets, with metals emerging as the dominant category on the Multi Commodity Exchange (MCX). The process of price discovery within financial markets is a pivotal factor that ensures sustainable trading practices. Through an extensive study analyzing the relationship between spot and futures prices of seven metal derivatives traded on the MCX over a decade-long period, significant correlations have been identified across all cases.JEL Codes: C32, C58,G13
New insights into an old problem: Rethinking the risk factor of rhegmatogenous retinal detachment associated with choroidal detachment from the viewpoint of treatment patterns: A retrospective study
Authors: Li Tao , Lai Kunbei , Gao Kai , chen ziye , Lin Zhuangling , Zheng Wenbin , Liu Yaping , Liu Baoyi , Ma Yuan , Chen Zitong , Tuxun Rebiya , Jiang Lan , Tsai Chinling , Xu Zhuojun 
Published: May 2024

Abstract

Background: To compare the proportion of rhegmatogenous retinal detachment associated with choroidal detachment (RRDCD) in the emergency surgery group with the routine inpatient surgery group and determine risk factors for RRDCD.
Methods: A total of 694 patients (eyes) diagnosed with rhegmatogenous retinal detachment (RRD) in the emergency surgery group were included from the Department of Ophthalmic Emergency, and 692 patients (eyes) in the routine inpatient surgery group were selected randomly from the Ocular Fundus Department. Demographics, refractive status, macular status, lens status, extent of retinal detachment, number of retinal breaks, duration of symptoms before surgery, and the incidence of RRDCD were compared. A logistic regression analysis was used to determine potential risk factors for RRDCD.
Results: Compared to the routine inpatient surgery group, the emergency surgery group had a significant less median time to surgery (P < 0.001) and a decreased proportion of RRDCD (2.88% vs. 10.84%, P < 0.001). Logistic regression analysis revealed that a prolonged duration of RRD [OR 3.51, 95% CI (1.98-6.23)], pseudophakia/aphakia status [OR 2.74, 95% CI (1.50-4.98)], multiple retinal breaks [OR 1.67, 95% CI (1.03-2.70)], and a substantial extent of RRD [OR 11.58, 95% CI (7.12-18.84)] were independent risk factors for RRDCD.
Conclusions: Emergency surgical pattern of RRD demonstrated a lower incidence of RRDCD. The adoption of an expedited surgical approach has the potential to reduce the duration of RRD, possibly correlating with a decreased risk of RRDCD development.
Muti-omics revealed the mechanisms of MT-conferred tolerance of Elymus nutans Griseb. to low temperature at XiZang
Authors: Zhuoma Pubu , Tondrob Dorjeeh , Qunpei Tudeng , Fu Juanjuan , Dan Sang 
Published: May 2024

Abstract

Background
Low temperature seriously limited the development of grass and crops in plateau. Thus, it is urgent to develop an effective management strategy for improving the plant cold tolerance and elucidate the underlying mechanisms.
Results
we found that MT improved could tolerance of ENG via enhancing antioxidant enzymes and accumulating flavonoids. Further integration of transcriptome and metabolome profiles showed that both cold exposure (CE) and MT reprogrammed the transcription pattern of galactose and flavonoids biosynthesis, leading to changes in compositions of soluble sugar and flavonoids. Additionally, CE inhibited the photosynthesis, and destroyed the antioxidant system of ENG, leading to accumulation of oxidant radicals represented by MDA. Of note, MT improved the activity of antioxidant system, reduced the MD content and maintained normal expression of photosynthesis-related genes of ENG even under CE. Importantly, MT mainly enhanced cold tolerance of ENG via activating zeatin signal to regulate flavonoid biosynthesis in vivo. Numerous transcription factors (WRKY17, WRKY11 and MYB59) involved in regulating zeatin synthesis were activated by MT in ENG.
Conclusions
our research gain insight into the global mechanisms of MT in promoting cold tolerance of ENG, then provided guidance for protecting plant from cold stress in plateau.
Probing the oral-brain connection: Oral microbiome patterns in a large community cohort with anxiety, depression, and trauma symptoms, and periodontal outcomes
Authors: Malan-Müller Stefanie , Vidal Rebeca , O'Shea Esther , Montero Eduardo , Figuero Elena , Zorrilla Iñaki , de Diego-Adeliño Javier , Cano Marta , García-Portilla María , González-Pinto Ana , Leza Juan 
Published: May 2024

Abstract

The role of the oral microbiome in mental health has recently been appreciated within the proposed oral-brain axis. This study examined the structure and composition of the salivary microbiome in a large-scale population-based cohort of individuals reporting mental health symptoms (n = 306) compared to mentally healthy controls (n = 164) using 16S rRNA sequencing. Mental health symptoms were evaluated using validated questionnaires and included depression, anxiety, and posttraumatic stress disorder, with accompanying periodontal outcomes. Participants also indicated current or previous diagnoses of anxiety, depression, periodontitis, and gingivitis. Mental and periodontal health variables influenced the overall composition of the oral microbiome. PTSD symptoms correlated with reduced Haemophilus sputorum and elevated Prevotella histicola levels. Anxiety disorder diagnosis was associated with decreased Neisseria elongate and increased Oribacterium asaccharolyticum. P. histicola abundance was also positively associated with depressive scores and negatively associated with psychological quality of life. A higher abundance of Shuttleworthia and a lower abundance of Capnocytophaga were evident in those who reported a clinical periodontitis diagnosis. Functional prediction analysis revealed a potential role for tryptophan metabolism/degradation in the oral-brain axis, which was confirmed by lower plasma serotonin levels across symptomatic groups. Higher Eggerthia and lower Haemophilus parainfluenzae abundance were associated with reported clinical periodontitis diagnosis and psychotherapeutic efficacy. This study sheds light on the intricate interplay between oral microbiota, periodontal outcomes, and mental health, emphasizing the need for further exploration of the oral-brain axis to pave the way for novel therapeutic interventions and predicting therapeutic response.
Adsorption of amoxicillin by chitosan and alginate biopolymers composite beads.
Authors: Pinheiro Claudio Pereira , Tokura Beatriz Kaori , Germano Natália Soares , de Moraes Mariana Agostini , Bresolin Igor Tadeu Lazzarotto 
Published: May 2024

Abstract

Amoxicillin is one of the most used antibiotics worldwide, and due to incomplete metabolism in the human body or inadequate disposal, it has been detected in the receiving water bodies. One of the major concerns is the promotion of antibiotic resistance, as well as its toxicity to aquatic organisms such as fish, invertebrates, and algae, and its ability to disrupt the natural microbial communities in water bodies. Moreover, water and wastewater treatment plants struggle to effectively treat water contaminated with amoxicillin. Consequently, new processes need to be explored to complement traditional water and wastewater treatments. Adsorption, being a relatively economical and simple technique, appears promising for this purpose. Numerous adsorbents are found in the literature to adsorb drugs, however, the fabrication of all these adsorbents involves various complex steps and substances when compared to the chitosan and alginate beads. Therefore, the objective of this study was to assess the adsorption of amoxicillin on chitosan and alginate beads. The optimal pH was found to be 4 for both beads. The kinetics study indicates that external diffusion governs adsorption for alginate, while internal diffusion governs adsorption for chitosan. Thermodynamic parameters demonstrated that adsorption is a spontaneous and endothermic process.
Rupture of subclavian artery pseudoaneurysm after clavicle nonunion surgery in adolescents: a case report
Authors: Zhou Yuxing , Li Genhe , Liu Zhenjiang , Shen Chulong , Shen Zhaoxiong 
Published: May 2024

Abstract

Background Adolescent clavicle fractures usually have a satisfactory prognosis after conservative treatment and an extremely low incidence of nonunion. This article reports a rare case: a clavicle nonunion and congenital absence in most of the first-rib patients. He was found to have a ruptured subclavian artery pseudoaneurysm after clavicle nonunion surgery.
Case presentation A 15-year-old boy sustained a right clavicle fracture three years ago, which, left untreated, gradually progressed to clavicle nonunion. The patient came to our hospital for surgical treatment. The admission X-ray revealed mid-clavicle nonunion and congenital absence of most of the first rib. We performed open reduction and internal fixation of the clavicle nonunion after a thorough examination. A rupture of the subclavian artery pseudoaneurysm was found 2 days after surgery, and the patient was sent to emergency intervention for embolization of the subclavian artery pseudoaneurysm. The hematoma compression caused a brachial plexus nerve injury. The patient gradually recovered after rehabilitation.
Conclusions Congenital rib deformity in adolescents may be combined with peripheral vascular and nerve variations, and long-term compression of the subclavian artery by clavicle nonunion can aggravate vascular malformation. Such patients should prevent vascular rupture during surgery.
Comparative transcriptome investigation reveals defense responses against soft rot induced by Pectobacterium aroidearum and Pectobacterium carotovorum in Pinellia ternata
Authors: Luo Ming , Wang Mingxing , Xu Jiawei , Qu Kaili , Miao Yuhuan , Liu Dahui 
Published: May 2024

Abstract

Pectobacterium carotovorum and Pectobacterium aroidearum represent the primary pathogens causing variable soft rot disease. However, the fundamental defense responses of Pinellia ternatato pathogens remain unclear. Our investigation demonstrated that the disease produced by P. carotovorum is more serious than P. aroidearum. RNA-seq analysis indicated that many cell wall-related genes, receptor-like kinase genes, and resistance-related genes were induced by P. aroidearum and P. carotovorum similarly. But many different regulatory pathways exert a crucial function in plant immunity against P. aroidearum and P. carotovorum, including hormone signaling, whereas auxin-responsive genes were responsive to P. carotovorum, while ethylene and gibberellin-responsive genes were responsive to P. aroidearum. 12 GDSL esterase/lipase genes and 3 fasciclin-like arabinogalactan protein genes were specifically upregulated by P. carotovorum, whereas 11 receptor-like kinase genes and 8 disease resistance genes were up-regulated only by P. aroidearum. Among them, a lectin gene (part1transcript/39001) was induced by P. carotovorum and P. aroidearum simultaneously. Transient expression in N. benthamianademonstrated that the lectin gene improves plant resistance to P. carotovorum. This study offers a comprehensive perspective on P. ternata immunity produced by different soft rot pathogens and reveals the importance of lectin in anti-soft rot of P. ternata for the first time.
The role of national nutrition programs on stunting reduction among under-two years’ children in Rwanda using machine learning classifiers. Author’s list
Authors: Munyemana Jacques , Kabano Ignace H. , Uzayisenga Bellancile , Cyamweshi Athanase Rusanganwa , Ndagijimana Emmanuel , Emmanuel Kubana 
Published: May 2024

Abstract

Background
In Rwanda, the prevalence of childhood stunting has slightly decreased over the past five years, from 38% to about 33% today. It is evident whether Rwanda's multi-sectorial approach to reducing child stunting is consistent with the available scientific knowledge. The study was to examine the benefits of national nutrition programs on stunting reduction under two years in Rwanda using ML classifiers.
Methods
Data from the Rwanda DHS 2015–2020, MEIS and LODA household survey were used. The model was constructed using five algorithms: Support Vector Machine, Logistic Regression, K-Near Neighbor, Random Forest, and Decision Tree. We estimated the hazard ratio for the Cox Proportional Hazard Model and drew the Kaplan-Meier curve to compare the survivor risk of being stunted between program beneficiaries and non-beneficiaries. Precision, recall, F1 score, accuracy, and Area under the Curve (AUC) are the metrics that were used to evaluate each classifier's performance to find the best one.
Results
Based on the provided data, the study revealed that the ECD program (OR = 0.406, 95 percent CI: 0.172–0.961, p-value = 0.041), NSDS program (OR = 0.463, 95 percent CI: 0.340-
The nexus between detection uncertainty and quantifying meteorological extremes of the Euro-Atlantic atmospheric rivers
Authors: Thandlam Venugopal , Rutgersson Anna , Sahlee Erik 
Published: May 2024

Abstract

While orographic and regional climate effects play a crucial role in how Atmospheric Rivers (ARs) affect the weather, it is essential to reduce uncertainty in detecting ARs to understand their impact on weather patterns better. This study delves into the relationship between AR detection uncertainty and the characterisation of meteorological extremes over the Euro-Atlantic region using long-term historical data from ERA5 during 1940-2022. Leveraging the Bayesian AR detection (BARD), a form of statistical machine learning model in the Toolkit for Extreme Climate Analysis (TECA), we examine AR detections and variability and their consequential impact on precipitation,
wind speeds and temperature patterns over Europe, the UK and Scandinavia. There is widespread uncertainty and disagreement among AR detections from 1024 sets of AR priories (detectors) from the model at a given instance, which led to a large spread in the aggregated detected AR probabilities (ARP) spatially and temporally. The study reveals significant differences in ARs’ attributes, such as frequency, intensity, and their impact on weather phenomena at selected probability thresholds across space and time. The magnitude of meteorological phenomena associated with ARs over land varies based on the chosen deciles of ARPs. Although AR frequencies and intensities are increasing in many parts of Europe and the UK, the effects of AR detection uncertainties are more prominent over inland Europe and Scandinavia than over coastal Europe and the UK. Using the
entire probability spectrum is an alternative to reduce uncertainty but may result in computational constraints and imprecise discernment of extreme events. Understanding meteorological extremes induced by AR uncertainties can help us develop effective strategies to mitigate hazards and adapt to changing climate conditions.
Breastfeeding in Children with Down Syndrome
Authors: Rodríguez Alejandra Ochoa , Puente Silvestre García de la , Arizmendi Karla Adney Flores , Robledo Tania Tonantzin Vargas 
Published: May 2024

Abstract

Introduction. Babies with Down syndrome (DS) present physical characteristics that can make breastfeeding difficult, including hypotonia of the muscles of the oral cavity and pharynx which can create problems with sucking and swallowing. Breastfeeding has proven beneficial for babies, and it is recommended to be exclusive for the first 6 months. However, babies born with DS have a higher probability of not being breastfed. Objective. Describe the frequency and characteristics of breastfeeding in children with DS at the National Institute of Pediatrics, Mexico City. Materials and Methods. This was an observational, descriptive, prospective, and cross-sectional study with 100 mothers concerning their breastfeeding experience, using the 2019 ENSANUT questionnaire. The analysis was performed with descriptive statistics. Results. The mothers reported that 98% of their babies had received mother’s milk at least once and that 64% had received infant formula in the first three days of life. The median duration of breastfeeding was three months; 32.4% of the babies were exclusively breastfed for 6 months. Risk factors for not being breastfed were problems with sucking, swallowing, and not providing feeding on demand, as well as improper technique. Conclusions. Only 32% of babies were exclusively breastfed, for various reasons.
Impacts of Indoor Residual Spraying with Bendiocarb and Pirimiphos-methyl on Allelic Frequencies of kdr and ACE-1 Mutations in Central Senegal
Authors: Diouf El Hadji , Senghor Massila Wagué , Sy Mamadou Demba , Ndiaye Assane , Konaté Abdoulaye , Niang Omar , Faye Ousmane , Dia Ibrahima , Niang El Hadji Amadou , Konaté Lassana 
Published: May 2024

Abstract

The use of long-lasting insecticidal nets (LLINs) and indoor residual spraying (IRS) has been the primary vector control strategy in Senegal since 2007, significantly reducing the burden of malaria. However, the emergence of vector resistance to insecticides poses a serious threat to the effectiveness of these strategies. This study aimed to assess susceptibility, spatio-temporal variations and, the impact of IRS using bendiocarb and pirimiphos-methyl on allele frequencies and resistant genotype of kdr and Ace-1 in An. gambae s.l. in IRS and control zones in central Senegal between 2013 and 2014. Larvae of An. gambiae s.l. were collected from four IRS and two control districts in central Senegal. Adult females obtained from these collections were exposed to paper impregnated with pyrethroids, DDT, dieldrin, bendiocarb and pirimiphos-methyl over a two-year period. Specific identification of An. gambiae complex and the research into insecticide resistance markers were conducted using PCR. The species identified were characterized by investigating kdr mutations (Vsgc-1014F and Vsgc-1014S) and Ace-1 mutations. Susceptibility tests showed resistance to permethrin and deltamethrin in at least three of the four IRS districts, while control districts exhibited resistance or suspected resistance to these insecticides. Resistance to DDT and dieldrin was detected in all districts. However, susceptibility to bendiocarb and pirimiphos-methyl was observed in all An. gambiae s.l. populations in IRS districts. Identification of the An. gambiae complex revealed the presence of three species (An. arabiensis, An. gambiae s.s., and An. coluzzii) and hybrids. An. arabiensis populations collected from IRS areas exhibited significantly lower allele 1014F frequencies but significantly higher allele frequencies compared to those from control areas. The effects of IRS use with bendiocarb and pirimiphos methyl on allele frequencies were evident over the two-year period. This study suggests that IRS using bendiocarb and pirimiphos methyl may result in shifts in vector populations less likely to carry kdr mutations, potentially reducing the frequency of alleles 1014F and 1014S.