bluuebunny/crossref_metadata_2025_split huggingface dataset:
Deep SVBRDF Acquisition and Modelling: A Survey
Authors: Kavoosighafi Behnaz , Hajisharif Saghi , Miandji Ehsan , Baravdish Gabriel , Cao Wen , Unger Jonas 
Published: September 2024

AbstractHand in hand with the rapid development of machine learning, deep learning and generative AI algorithms and architectures, the graphics community has seen a remarkable evolution of novel techniques for material and appearance capture. Typically, these machine‐learning‐driven methods and technologies, in contrast to traditional techniques, rely on only a single or very few input images, while enabling the recovery of detailed, high‐quality measurements of bi‐directional reflectance distribution functions, as well as the corresponding spatially varying material properties, also known as Spatially Varying Bi‐directional Reflectance Distribution Functions (SVBRDFs). Learning‐based approaches for appearance capture will play a key role in the development of new technologies that will exhibit a significant impact on virtually all domains of graphics. Therefore, to facilitate future research, this State‐of‐the‐Art Report (STAR) presents an in‐depth overview of the state‐of‐the‐art in machine‐learning‐driven material capture in general, and focuses on SVBRDF acquisition in particular, due to its importance in accurately modelling complex light interaction properties of real‐world materials. The overview includes a categorization of current methods along with a summary of each technique, an evaluation of their functionalities, their complexity in terms of acquisition requirements, computational aspects and usability constraints. The STAR is concluded by looking forward and summarizing open challenges in research and development toward predictive and general appearance capture in this field. A complete list of the methods and papers reviewed in this survey is available at computergraphics.on.liu.se/star_svbrdf_dl/.
Clinicopathological characteristics of low‐dose methotrexate‐induced epidermal dysmaturation: A study of 22 patients
Authors: Aebischer Valentin , Hahn Matthias , Lenders Daniela , Metzler Gisela , Schaller Martin , Silber Toni , Forchhammer Stephan 
Published: September 2024

SummaryBackground and ObjectiveErosions of the skin and mucous membranes with epidermal dysmaturation are a known side effect of cytostatic chemotherapy regimens and can also be observed during low‐dose methotrexate (MTX) therapy. The study aimed to delineate the clinical and histopathological alterations.Patients and MethodsA database search of the archive for dermatopathology was conducted, identifying 22 patients who developed epidermal dysmaturation on low‐dose MTX. Clinical and laboratory changes, along with an array of histologic parameters were analyzed and statistically evaluated using SPSS.ResultsPatients were predominantly female with a mean age of 69.1 years. The main indications were psoriasis vulgaris and rheumatoid arthritis. Clinically, patients mostly presented erosive plaques at the injection site, on mucosal surfaces, and disseminated lesions. Most patients showed normal laboratory values. Histopathologically, key findings included enlarged keratinocytes with pale cytoplasm and enlarged nuclei with prominent nucleoli, along with the degeneration of the basal layer. Consistent observations in the dermal compartment included infiltration of neutrophilic granulocytes, lymphocytes, and histiocytes.ConclusionsThis study proposes clinicopathological criteria for the diagnosis of MTX‐associated skin toxicity, aiming to increase awareness among clinicians and pathologists for early diagnosis. Early recognition can prevent potentially life‐threatening progression.
Cortical oscillations are modified by expertise in dance and music: Evidence from live dance audience
Authors: Poikonen Hanna , Tervaniemi Mari , Trainor Laurel 
Published: September 2024

AbstractOver the past decades, the focus of brain research has expanded from using strictly controlled stimuli towards understanding brain functioning in complex naturalistic contexts. Interest has increased in measuring brain processes in natural interaction, including classrooms, theatres, concerts and museums to understand the brain functions in the real world. Here, we examined how watching a live dance performance with music in a real‐world dance performance setting engages the brains of the spectators. Expertise in dance or music has been shown to modify brain functions, including when watching dance or listening to music. Therefore, we recorded electroencephalography (EEG) from an audience of dancers, musicians and novices as they watched the live dance performance and analysed their cortical oscillations. We compared intrabrain oscillations when participants watched the performance (with music) or listened to the music alone without the dance. We found that dancers have stronger fronto‐central and parieto‐occipital theta phase synchrony (4–8 Hz) than novices when watching dance, likely reflecting the effects of dance experience on motor imagery, multisensory and social interaction processes. Also, compared with novices, dancers had stronger delta phase synchrony (0.5–4 Hz) when listening to music, and musicians had stronger delta phase synchrony when watching dance, suggesting expertise in music and dance enhances sensitivity or attention to temporal regularities in movement and sound.
L2 discourse marker use in interaction: The case of pues in Spanish
Authors: Dickerson Sydney , Czerwionka Lori 
Published: September 2024

AbstractWhile discourse markers (DMs) are crucial for coherence and interactional competence, previous research suggests that learners' usage of DMs differs from L1 speakers. Prior research has taken either a discourse‐functional or interactional approach, yet combining these two methods may provide greater understanding of the unique learner communicative needs that drive the acquisition and use of DMs. This investigation contributes to research on interlanguage DM use by quantitatively investigating the frequency and functional distribution of the Spanish DM pues by L2 and L1 speakers of Spanish from a discourse‐functional perspective and qualitatively examining pues as an interactional resource. Oral interviews with 58 L2 and 14 L1 speakers of Spanish were analyzed, revealing distinct frequency and distributional patterns across groups and unique L2 interactional needs that are supported with the DM pues. Results inform L2 learners and teachers of the importance of DMs for interactions and provide classroom implications.
Recent developments shaping the future of antimicrobial edible food packaging: a review
Authors: Yemenicioğlu Ahmet 
Published: September 2024

SummaryThis article aimed at reviewing recent developments shaping the future of antimicrobial edible food packaging. The main issues discussed in the article are (i) factors (e.g. waste valorisation, sustainability, health and environmental concerns, religious concerns, etc.) causing emerging of alternative hydrocolloids extracted from farming/processing wastes of plants, animals, fungi, insects, snails, etc. as antimicrobial edible packaging material; (ii) emerging methods of manufacturing antimicrobial packaging (e.g. extruded and co‐extruded antimicrobial casings, antimicrobial electrospun mats, and electrosprayed films, coatings and particles); (iii) emerging concepts in using natural antimicrobials in edible packaging such as using narrow‐ or broad‐spectrum antimicrobials, synergetic mixtures, and controlled release strategies based on nanoencapsulation (e.g. Pickering emulsions, nanoemulsions, inclusion complexes, solid lipid nanoparticles and nanostructured lipid carriers). This review helps discovering the future of active edible packaging that is expected to play a central role in improving food safety and quality, human health and environmentally friendly practices.
Work‐Related Strain, Sense of Coherence and Intercultural Sensitivity Among Mental Health Nurses in Qatar: A Cross‐Sectional Study
Authors: Badanapurkar Ashishkumar , Nelson Deborah , Nazarene Ananth , Smith Katja Warwick , Phiri Lazarus , Varghese Sejo , Ramapurath Shiju 
Published: September 2024

ABSTRACTMigrant nurses face many challenges as they adapt and assimilate into their new working environments. The aim of this cross‐sectional study was to investigate the perceptions of work‐related strain, sense of coherence and intercultural sensitivity among nurses who were employed at a public mental health facility in Qatar. We used three self‐report questionnaires: the work‐related strain inventory, sense of coherence scale and an intercultural sensitivity scale. A cohort of 136 nurses voluntarily engaged in the study. The majority of participants were male, migrated from South Asia and were in their mid‐30s. The study found that both sense of coherence and intercultural sensitivity were inversely proportional to work‐related strain. Work‐related strain was found to be lower than expected; the factors that appear to protect against work‐related strain include longer clinical experience, a high sense of coherence, and intercultural sensitivity. Additionally, greater age and extended clinical experience, combined with a history of work in three or more countries, associated with higher scores on the sense of coherence scale. Lastly, being female, having a postgraduate degree and holding a senior‐level position were associated with increased intercultural sensitivity. As nurses' migration across national and international borders increases in response to global demand, this study has important implications for nursing administrators, educators and policymakers in relation to the development and implementation of strategies to enhance nurses' sense of coherence and intercultural sensitivity and prevent work‐related strain.Trial Registration number: NCT04196751.
Kinesin‐1‐like protein PSS1 is essential for full‐length homologous pairing and synapsis in rice meiosis
Authors: Zhou Yue , Li Yafei , You Hanli , Chen Jiawei , Wang Bingxin , Wen Minsi , Zhang Yansong , Tang Ding , Shen Yi , Yu Hengxiu , Cheng Zhukuan 
Published: September 2024

SUMMARYThe pairing and synapsis of homologous chromosomes are crucial for their correct segregation during meiosis. The LINC (Linker of Nucleoskeleton and Cytoskeleton) complex can recruit kinesin protein at the nuclear envelope, affecting telomere bouquet formation and homologous pairing. Kinesin‐1‐like protein Pollen Semi‐Sterility1 (PSS1) plays a pivotal role in male meiotic chromosomal behavior and is essential for fertility in rice. However, its exact role in meiosis, especially as kinesin involved in homologous pairing and synapsis, has not been fully elucidated. Here, we generated three pss1 mutants by genome editing technology to dissect PSS1 biological functions in meiosis. The pss1 mutants exhibit alterations in the radial microtubule organization at pachytene and manifest a deficiency in telomere clustering, which is critical for full‐length homologous pairing. We reveal that PSS1 serves as a key mediator between chromosomes and cytoskeleton, thereby regulating microtubule organization and transmitting the force to nuclei to facilitate homologous chromosome pairing and synapsis in meiosis.
Draft genome sequence of two
Aspergillus aculeatus
isolated from cashew nuts from coastal Kenya
Authors: Aloo Manase Onyango , Gachanja Pauline Wambui , Muzami Eugene Mwanza , Katua Kyalo , Mukhebi Dennis Wamalabe , Musangi Colletah Rhoda , Juma Bicko Steve , Mbinda Wilton Mwema 
Published: September 2024

ABSTRACT

Aspergillus aculeatus
is a common saprophyte and ubiquitous fungus belonging to section
Nigri
. They produce diverse secondary metabolites which are important in biological processes and industrial applications. We present the draft genome sequences of two
A. aculeatus
isolated from cashew nuts from coastal Kenya.
HCMV detection in Asian gastric cancer RNA-seq data sets and clinical validation in Indian GC patients reveals the HCMV-GC specific gene signatures
Authors: Krishnamoorthy Pandikannan , Raj Athira S. , Das Nilanjana , Chenkual Saia , Pautu Jeremy L. , Ralte Lalengkimi , Senthil Kumar Nachimuthu , Kumar Himanshu 
Published: September 2024

ABSTRACT

Gastric cancer (GC) prevalence is very high in the Asian population. Oncogenic viruses play a crucial role in the progression of different types of cancers. Through reanalysis of clinical RNA-seq data sets derived from Asian GC patients, this study identified the presence of human cytomegalovirus (HCMV) in Asian GC tumors, next to the well-studied association of EBV. Clinical recruitment of the Indian GC cohort and screening for HCMV presence identified a 14.28% occurrence, similar to that observed in the bioinformatics analysis. A combinatorial approach of rank-based meta-analysis and ranking of groups based on an expectation-maximization algorithm identified that the upregulated LINC02864 and MAGEA10 correlated with poor survival of GC patients and downregulated tumor suppressor genes enriching for gastric acid secretion pathway to be associated with HCMV-positive GC patients, revealing the progressive role of HCMV infection in GC. Genes that discriminate between different stages of GC were identified through feature selection implemented in a machine-learning approach. LTF and KLK10 expressions were found to be specifically dysregulated by HCMV and can also indicate the GC stages. The results of this study will guide future studies to identify the functional role of these genes in the HCMV-associated GC.

IMPORTANCE
Nearly 75% of gastric cancer (GC) cases reported globally are from the Asian population. Most existing public databases, such as TCGA, comprise only a fractional portion of data derived from Asian ancestry. This study identified EBV and human cytomegalovirus (HCMV)'s higher detection in GC patients. The presence and role of EBV associated with GC are well-known, and the observation of HCMV prompted us to validate the findings in a small cohort of 40 Indian GC patients. We observed a 14.28% occurrence of HCMV in the Indian cohort, similar to that observed from next-generation sequencing. A combinatorial approach of rank-based meta-analysis and ranking of groups based on an expectation-maximization algorithm identified that the upregulated LINC02864 and MAGEA10 correlated with poor survival of GC patients and downregulated tumor suppressor genes enriching for gastric acid secretion pathway to be associated with HCMV-positive GC patients, revealing the progressive role of HCMV infection in GC.
Water chlorination increases the relative abundance of an antibiotic resistance marker in developing sourdough starters
Authors: Lau Pearson , Jain Swapan , Perron Gabriel G. 
Published: September 2024

ABSTRACT

Multiple factors explain the proper development of sourdough starters. Although the role of raw ingredients and geography, among other things, have been widely studied recently, the possible effect of air quality and water chlorination on the overall bacterial communities associated with sourdough remains to be explored. Here, using
16S rRNA
amplicon sequencing, we show that clean, filtered-air severely limited the presence of lactic acid bacteria in sourdough starters, suggesting that surrounding air is an important source of microorganisms necessary for the development of sourdough starters. We also show that water chlorination at levels commonly found in drinking water systems has a limited impact on the overall bacterial communities developing in sourdough starters. However, using targeted sequencing, which offers a higher resolution, we found that the abundance of integron 1, a genetic mechanism responsible for the horizontal exchange of antibiotic-resistance genes in spoilage and pathogenic bacteria, increased significantly with the level of water chlorination. Although our results suggest that water chlorination might not impact sourdough starters at a deep phylogenetic level, they indicate that it can favor the spread of genetic elements associated with spoilage bacteria.

IMPORTANCE
Proper development of sourdough starters is critical for making tasty and healthy bread. Although many factors contributing to sourdough development have been studied, the effect of water chlorination on the bacterial communities in sourdough has been largely ignored. Researchers used sequencing techniques to investigate this effect and found that water chlorination at levels commonly found in drinking water systems has a limited impact on the overall bacterial communities developing in sourdough starters. However, they discovered that water chlorination could increase the abundance of integron 1, a genetic mechanism responsible for the horizontal exchange of antibiotic resistance genes in spoilage and pathogenic bacteria. This suggests that water chlorination could favor the growth of key spoilage bacteria and compromise the quality and safety of the bread. These findings emphasize the importance of considering water quality when developing sourdough starters for the best possible bread.
Investigation of end-stage kidney disease risk prediction in an ethnically diverse cohort of people with type 2 diabetes: use of kidney failure risk equation
Authors: Goubar Aicha , Mangelis Anastasios , Thomas Stephen , Fountoulakis Nikolaos , Collins Julian , Ayis Salma , Karalliedde Janaka 
Published: September 2024

IntroductionThe four variable kidney failure (KF) risk equation (KFRE) is recommended to estimate KF risk (ie, need for dialysis or kidney transplantation). Earlier referral to clinical kidney services for people with high-risk of kidney failure can ensure appropriate care, education and support are in place pre-emptively. There are limited data on investigating the performance of KFRE in estimating risk of end-stage kidney disease (ESKD) in people with type 2 diabetes mellitus (T2DM) and chronic kidney disease (CKD). The primary ESKD endpoint event was defined as estimated glomerular filtration rate (eGFR) <10 mL/min/1.73 m2and secondary endpoint eGFR <15 mL/min/1.73 m2.Research design and methodsWe studied 7296 people (30% women, 41% African-Caribbean, 45% Caucasian) with T2DM and CKD (eGFR median (range) 48 (15–59) mL/min/1.73 m2) were included at two hospitals in London (median follow-up 10.2 years). Time to ESKD event was the endpoint and Concordance index (C-index) was used to assess KFRE’s discrimination of those experiencing ESKD from those who did not. Mean (integrated calibration index (ICI)) and 90th percentile (E90) of the difference between observed and predicted risks were used as calibration metrics.ResultsOf the cohort 746 (10.2%) reached ESKD primary event (135 (1.9%) and 339 (4.5%) over 2 and 5 years, respectively). Similarly, 1130 (15.5%) reached the secondary endpoint (270 (3.7%) and 547 (7.5%) over 2 and 5 years, respectively). The C-index for the primary endpoint was 0.842 (95% CI 0.836 to 0.848) and 0.816 (95% CI 0.812 to 0.820) for 2 and 5 years, respectively. KFRE ‘under-predicted’ ESKD risk overall and by ethnic group. Likewise, the C-index for secondary endpoint was 0.843 (0.839–0.847) and 0.801 (0.798–0.804) for 2 and 5 years, respectively. KFRE performance analysis performed more optimally with the primary endpoint with 50% enhancement of the calibration metrics than with the secondary endpoint. KFRE recalibration improved ICI by 50% and E90 by more than 78%.ConclusionsAlthough derived for predicting KF, KFRE also demonstrated good discrimination for ESKD outcome. Further studies are needed to identify variables/biomarkers that may improve KFRE’s performance/calibration and to aid the development of other predictive models to enable early identification of people at risk of advanced stages of CKD prior to onset of KF.
Clinical effectiveness of robotic versus laparoscopic and open surgery: an overview of systematic reviews
Authors: Lai Tzu-Jung , Roxburgh Campbell , Boyd Kathleen Anne , Bouttell Janet 
Published: September 2024

ObjectiveTo undertake a review of systematic reviews on the clinical outcomes of robotic-assisted surgery across a mix of intracavity procedures, using evidence mapping to inform the decision makers on the best utilisation of robotic-assisted surgery.Eligibility criteriaWe included systematic reviews with randomised controlled trials and non-randomised controlled trials describing any clinical outcomes.Data sourcesOvid Medline, Embase and Cochrane Library from 2017 to 2023.Data extraction and synthesisWe first presented the number of systematic reviews distributed in different specialties. We then mapped the body of evidence across selected procedures and synthesised major findings of clinical outcomes. We used a measurement tool to assess systematic reviews to evaluate the quality of systematic reviews. The overlap of primary studies was managed by the corrected covered area method.ResultsOur search identified 165 systematic reviews published addressing clinical evidence of robotic-assisted surgery. We found that for all outcomes except operative time, the evidence was largely positive or neutral for robotic-assisted surgery versus both open and laparoscopic alternatives. Evidence was more positive versus open. The evidence for the operative time was mostly negative. We found that most systematic reviews were of low quality due to a failure to deal with the inherent bias in observational evidence.ConclusionRobotic surgery has a strong clinical effectiveness evidence base to support the expanded use of robotic-assisted surgery in six common intracavity procedures, which may provide an opportunity to increase the proportion of minimally invasive surgeries. Given the high incremental cost of robotic-assisted surgery and longer operative time, future economic studies are required to determine the optimal use of robotic-assisted surgery capacity.