bluuebunny/crossref_metadata_2025_split huggingface dataset:
Primary Mandibular Tuberculous Osteomyelitis Mimicking Ameloblastoma: A Case Report and Literature Review of Mandibular Tuberculous Osteomyelitis
Authors: Chalwade Chandrashekhar , Khosa Armaan , Ballary Kishor , Mago Raghav 
Published: November 2023

AbstractPrimary tuberculous osteomyelitis involving the mandible represents less than 2% of skeletal locations. In this paper, we report a case of mandibular tuberculosis (TB) detected after histopathological analysis of the surgically resected specimen during surgical management of a suspected case of ameloblastoma. A 14-year-old male patient presented to us with history of right-sided chin swelling. The clinical examination revealed a swelling, involving right body and parasymphysis of mandible, measuring approximately 6 cm in length and 2 cm in width, extending from right lateral incisor till the first molar. Radiological scans revealed a large multiloculated osteolytic expansive lesion measuring 52 × 20 × 18 mm. Excision of the lesion was performed and reconstruction was done with iliac bone grafting. The histopathological findings revealed a granulomatous lesion, suggestive of tuberculous osteomyelitis. The patient was successfully treated with standard multidrug therapy. One year after completion of therapy, there were no signs of recurrence. Primary mandibular TB is an extremely rare entity. Its clinical presentation is not specific. Radiologically, TB has no characteristic appearance. The positive diagnosis is based on histology. Primary mandibular TB is rare and should be kept among differential diagnoses in susceptible population and in endemic areas.
Nickel-Catalyzed sp3 C–H Activation
Authors: Lautens Mark , Johnson Colton E. , Li Shangyu , Arora Ramon , Mirabi Bijan 
Published: November 2023

AbstractBase metal catalyzed C–H activation represents a highly atom economic method to access functionalized molecules. This Account will focus on Ni-catalyzed C–H activation of sp3-hybridized carbon atoms with a particular focus on mechanism, recent applications, challenges, and outlook in this area. This Account will primarily focus on recent mechanistic work from 2017–2023.1	Base Metal C–H Activation2	Nickel-Catalyzed sp3 C–H activation3	Differences between Ni and Pd4	Mechanistic Considerations5	Elementary Steps6	Directed sp3 C–H Activation7	Choice of Directing Group8	Primary C–H Activation9	Secondary C–H Activation10	Tertiary C–H Activation11	Conclusion and Outlook
Lingual Artery as the Recipient Vessel of Choice in Patients Requiring a Second or Third Free Flap in Recurrent Oral Cancers and Vessel-Depleted Neck: A 5-Year Experience in a Single Institute
Authors: Dhondge Rajendra , Hussain Mohsina , Singh Archana , Nagarkar Raj 
Published: November 2023

Abstract
Introduction Reconstruction with free flaps becomes a challenge in recurrent cases having previously treated necks, in patients who have received prior radiation therapy or chemotherapy or both, and where the patient has already undergone free flap reconstruction in a prior surgery. Depleted cervical recipient vessels can increase the complexity of reconstruction in achieving successful free flap prefusion and thereby increasing flap thrombosis and eventually failure.
Materials and Methods Over a period of 5 years from January 2018 to February 2023, we encountered a total of 22 cases of recurrent or second primary oral cancer with bilateral necks operated, postadjuvant chemo-radiotherapy, and requiring a second or third free flap reconstruction. In most of the cases we resorted to the lingual artery as the recipient artery of choice.
Results No flap loss was reported. No cases were reexplored either for hematoma or for congestion. All patients recovered uneventfully.
Conclusion To the best of our knowledge, there has been no paper yet that focuses on the lingual artery to be the recipient vessel of choice in recurrent oral cancers. We find the lingual artery to be a reliable and safe option and advocate its usage as recipient vessel of choice in recurrent oral cancers requiring more than one free flap reconstruction.
Multifocal Ectopic Recurrence of a C2 Chordoma
Authors: Reyes Maikerly , Kayne Allison , Collopy Sarah , Prashant Giyarpuram , Kelly Patrick , Evans James J. 
Published: November 2023

Abstract
Background Chordomas are histologically benign but locally aggressive tumors with a high propensity to recur. Our case highlights the importance of long-term vigilance in patients who have undergone chordoma resection.
Case Report We report the case of a 47-year-old man with a cervical chordoma who developed multiple musculoskeletal ectopic recurrences in the left supraclavicular region, the proximal right bicep, and the left submandibular region without recurrence in the primary tumor site. Primary tumor resection was achieved via a combination of surgery, adjuvant radiation therapy, and imatinib. All recurrences were successfully resected and confirmed via pathology to be ectopic chordoma.
Discussion Ectopic recurrence of cervical chordoma is rare and lung is the most common site of distant spread. Chordoma recurrence in skeletal muscle is particularly rare, with only 10 cases described in the literature. A plausible mechanism of distant metastatic disease in chordoma patients suggests that tumor cells escape the surgical tract via a combination of cytokine release, vasodilation, and microtrauma induced during resection.
Conclusion Cervical chordoma with ectopic recurrence in skeletal muscle has not been previously described in the literature. Skull base surgeons should be aware of the phenomenon of chordoma ectopic recurrence in the absence of local recurrence.
Does the BRI contribute to poverty reduction in countries along the Belt and Road? A DID-based empirical test
Authors: Xie Niyun , Chen Aili , Wang Xiaolin , Zhang Xiaoying 
Published: November 2023

AbstractMost countries along the Belt and Road are developing countries that face pronounced challenges due to poverty. The Chinese government has committed to implementing the Belt and Road Initiative (BRI) to establish a ‘Road to Poverty Reduction’. This study explores the impact of the BRI on poverty reduction in participating countries as well as the mechanisms underlying this impact. This research is of great significance to the continuing implementation of the BRI and global poverty governance. Based on a panel dataset extending from 2005 to 2019 and encompassing 151 countries, this article uses the difference-in-differences method to examine the Initiative’s impact and conducts heterogeneity analysis to explore the mechanism underlying this impact in further detail. This approach results in four findings. First, joining the BRI can significantly reduce poverty rates in these countries. Second, the policy effect exhibits a time lag. In the long term, the poverty reduction effect becomes more significant. Third, the BRI can significantly reduce poverty in countries neighbouring China and in lower-middle-income countries. The Land Silk Road Economic Belt and the 21st-Century Maritime Silk Road distinctly reduce poverty. Fourth, the BRI contributes to poverty reduction in BRI countries by facilitating trade, enhancing financial and credit systems, increasing China’s greenfield investment, and establishing digital infrastructure. Additionally, the BRI promotes poverty reduction through increased bilateral visits and technical cooperation, whereas knowledge sharing remains an area in need of further development. Through theoretical analysis and empirical tests, this article evaluates the policy effect of the BRI on poverty alleviation, tests the underlying mechanism, and responds to some concerns expressed by the international community. The findings of this article provide a feasible direction for improving the ability of the BRI to reduce poverty more effectively in the future and thus achieve the United Nations’ sustainable development goals (SDGs).
Visual attention predictive model of built colonial heritage based on visual behaviour and subjective evaluation
Authors: Wu Yue , Li Na , Xia Lei , Zhang Shanshan , Liu Fangfang , Wang Miao 
Published: November 2023

AbstractAlthough physiological measurements, subjective evaluation and other methods have been applied to visual attention research, architects still lack a systematic quantitative classification method when assessing the visual attention to built colonial heritage. This study aimed to investigate the relationship between people’s visual behaviour and subjective evaluation when observing built colonial heritage and to construct a prediction model based on eye-movement metrics and subjective evaluation indicators to distinguish the visual attention to built colonial heritage. This study recorded data from 54 participants while observing five scenes of built colonial heritage, and the results showed that participants had different visual behaviours and subjective evaluations when viewing built colonial heritage in different scenes. And visual attention to built colonial heritage was negatively correlated with the average saccades peak velocity and average saccades amplitude and positively correlated with the average pupil diameter; visual attention was correlated with 12 subjective evaluation indicators. The eye-movement metrics and subjective evaluation indicators with correlation to visual attention were used as input variables to construct a prediction model of visual attention to built colonial heritage based on the BP neural network. Different built colonial heritage’s low, middle and high visual attention were identified with high accuracy (74.46%). This quantitative method can help architects to measure the visual attention to built colonial heritage to develop conservation and renewal strategies.
Big data visualisation in regional comprehensive economic partnership: a systematic review
Authors: Li Lijun 
Published: November 2023

AbstractThe Regional Comprehensive Economic Partnership (RCEP) is an agreement that transformed the world economy and entered into force in January 2022 with the participation of fifteen nations. In the study, the visualisation analysis was 301 articles in Web of Science (WoS) on the subjects of “RCEP,” or “The Regional Comprehensive Economic Partnership,” from January 2012 to January 2023, using CiteSpace. The results of a comparative analysis of the number of journals co-citation and keyword co-occurrence indicate that further studies of “RCEP” will not be limited to the scope of traditional economics, but more and further fields are waiting for scholars to develop.
Mindfulness and job performance in Chinese nonprofit workers: mediation effects of PANA and work engagement
Authors: Cheng Lingwei , Huang Chien-Chung , Sitar Sophie 
Published: November 2023

AbstractDespite the rapid growth of the Chinese nonprofit sector within the last 20 years, research shows Chinese nonprofit employees experience high rates of burnout and turnover. This has led to an increase in organizational instability and a decrease in service quality. This study examines the effect of mindfulness on job performance and whether positive and negative affect (PANA) and work engagement mediated this relationship in a sample of 233 Chinese nonprofit employees. The SEM results indicate mindfulness significantly increases job performance and that PANA and work engagement partially mediates the association between mindfulness and job performance. Mindfulness had a total effect of 0.52 on job performance, while its indirect effect on the performance was 0.16. These findings underscore the importance of mindfulness on job performance, as well as its effects on PANA and work engagement of nonprofit employees in China.
Lost detectives: intermedial adaptations of nineteenth-century Russian crime fiction. A conversation
Authors: Adlam Carol , Whitehead Claire 
Published: November 2023

Abstract
This conversation took place over three recorded sessions between Carol Adlam and Claire Whitehead in St Andrews and Nottingham between April and May 2023, to mark the culmination of the first four-year stage of a multi-media crime fiction-adaptation project, ‘Lost Detectives: Adapting Old Texts for New Media’ (funded by the University of St Andrews’ Knowledge Exchange and Impact Fund, led by Whitehead). Bringing together Whitehead’s research specialism in early Russian crime fiction and Adlam’s expertise in visual and textual adaptation, the aim of the Lost Detectives project is to draw on a large body of neglected works of early Russian crime fiction (1860–1917) as a corrective to the prevailing, canonical understanding of Russian literary culture, contributing deep historical perspective to the new and unfolding public socio-cultural and political discourse around ways in which Russian culture may take a proportionate place in our shared human legacy. From 2019 to 2023 Adlam made five cross-media adaptations, as follows: (1) The Bobrov Affair (2019): exhibition and proof-of-concept graphic material adapting Semyon Panov’s novella Tri suda, ili ubiistvo vo vremia bala (Three Courts, or Murder During the Ball; 1876); (2) ‘Spade and Sand’ (2019): libretto adaptation of Nikolai Timofeev’s short story ‘Ubiistvo i samoubiistvo’ (Murder and Suicide; 1872); (3) Today in 1864 (2020): 45-minute audio-drama adaptation of Nikolai Timofeev’s Zapiski sledovatelia (Notes of an Investigator; 1872); (4) Curare (2021): 45-minute audio-drama adaptation of Aleksandr Shkliarevskii’s ‘Sekretnoe sledstvie’ (A Secret Investigation; 1881); and (5) The Russian Detective, a 120-pp. graphic novel (Jonathan Cape, 2024). An eponymous podcast documents the project. The discussion has been edited for clarity.
A continuum of selection on life-history traits under differential environmental heterogeneity. A commentary on ‘Chasing the fitness optimum: temporal variation in genetic and environmental expression of life-history traits for a perennial plant’
Authors: Zettlemoyer Meredith A 
Published: November 2023

This article comments on:
Mason W. Kulbaba, Zebadiah Yoko and Jill A. Hamilton. Chasing the fitness optimum: temporal variation in the genetic and environmental expression of life-history traits for a perennial plant, Annals of Botany, Volume 132, Issue 7, 1 December 2023, Pages 1191–1204 https://doi.org/10.1093/aob/mcad100
Evaluating the physiological responses and identifying stress tolerance of Akabare chili landraces to individual and combined drought and heat stresses
Authors: Poudyal Damodar , Joshi Bal Krishna , Zhou Rong , Ottosen Carl-Otto , Dahal Kishor Chandra 
Published: November 2023

Abstract
Abstract. Akabare chili (Capsicum annuum) contributes to Nepalese rural livelihoods but suffers from low productivity due to various abiotic stresses including drought and heat. This study aimed to assess the physiological responses of Akabare chili landraces to heat and drought stress, individually and together, and to identify stress-tolerant genotypes in the early vegetative stage. Selected eight Akabare chili landraces and chili variety ‘Jwala’ were subjected to control (30/22 °C day/night) and heat stress (40/32 °C) conditions with irrigation, and drought stress (30/22 °C) and combined drought-heat stress conditions without irrigation for 7 days, followed by a 5-day recovery under control condition. Stress-tolerant landraces showed better performance compared to sensitive ones in terms of efficacy of PS II (Fv/Fm), transpiration rate (E), net photosynthetic rate (PN), stomatal conductance (gs), leaf temperature depression, water use efficiency (WUE) and the ratio of stomata pore area to stomata area under stress conditions, resulting in improved biomass. Although all genotypes performed statistically similar under control conditions, their responses Fv/Fm, PN, E, gs and WUE were significantly reduced under thermal stress, further reduced under drought stress, and severely declined under the combination of both. Total biomass exhibited a 57.48 % reduction due to combined stress, followed by drought (37.8 %) and heat (21.4 %) compared to the control. Among the landraces, C44 showed the most significant gain in biomass (35 %), followed by DKT77 (33.48 %), while the lowest gain percentage was observed for C64C and PPR77 during the recovery phase (29 %). The tolerant landraces also showed a higher percentage of leaf cooling, chlorophyll content and leaf relative water content with fewer stomata but broader openings of pores. The study identifies potential stress-tolerant Akabare chili landraces and discusses the stress-tolerant physiological mechanisms to develop resilient crop varieties in changing climates.
How Do Students Receive Help from Teachers? Initiating Assistance in Small Group Classroom Interactions
Authors: Solem Marit Skarbø , Sikveland Rein Ove , Stokoe Elizabeth , Skovholt Karianne 
Published: November 2023

Abstract
How do teachers decide when and how to help their students if not explicitly asked to do so? Based on conversation analysis of 14 h of video-recorded small group interactions in secondary schools, we discovered that teachers and students orient to subtle actions built through embodied conduct, to decide whether or not assistance is needed. We also found that problem-solving can be initiated without disturbing students’ progress and that the teachers’ movement creates opportunities for students to recruit their assistance in small group classroom interaction. The study contributes to conversation analytic and educational research by showing that embodiment is crucial for receiving and offering assistance in classrooms. In addition, this article provides insights into how experienced teachers manage the subtle and negotiated aspects of supporting learning in classrooms, an important and recurring part of classroom management that has received little attention in previous research.
Sake yeast symbiosis with lactic acid bacteria and alcoholic fermentation
Authors: Watanabe Daisuke 
Published: November 2023

ABSTRACT
The yeast Saccharomyces cerevisiae plays a pivotal role in the production of fermented foods by converting sugars in ingredients into ethanol through alcoholic fermentation. However, how accurate is our understanding of its biological significance? Although yeast is essential to produce alcoholic beverages and bioethanol, yeast does not yield ethanol for humankind. Yeast obtains energy in the form of ATP for its own vital processes through alcoholic fermentation, which generates ethanol as a byproduct. The production of ethanol may have more significance for yeast, since many other organisms do not produce ethanol, a highly toxic substance, to obtain energy. The key to address this issue has not been found using conventional microbiology, where yeasts are isolated and cultured in pure form. This review focuses on a possible novel role of yeast alcohol fermentation, which is revealed through our recent studies of microbial interactions.
PanPA: generation and alignment of panproteome graphs
Authors: Dabbaghie Fawaz , Srikakulam Sanjay K , Marschall Tobias , Kalinina Olga V 
Published: November 2023

Motivation
Compared to eukaryotes, prokaryote genomes are more diverse through different mechanisms, including a higher mutation rate and horizontal gene transfer. Therefore, using a linear representative reference can cause a reference bias. Graph-based pangenome methods have been developed to tackle this problem. However, comparisons in DNA space are still challenging due to this high diversity. In contrast, amino acid sequences have higher similarity due to evolutionary constraints, whereby a single amino acid may be encoded by several synonymous codons. Coding regions cover the majority of the genome in prokaryotes. Thus, panproteomes present an attractive alternative leveraging the higher sequence similarity while not losing much of the genome in non-coding regions.

Results
We present PanPA, a method that takes a set of multiple sequence alignments of protein sequences, indexes them, and builds a graph for each multiple sequence alignment. In the querying step, it can align DNA or amino acid sequences back to these graphs. We first showcase that PanPA generates correct alignments on a panproteome from 1350 Escherichia coli. To demonstrate that panproteomes allow comparisons at longer phylogenetic distances, we compare DNA and protein alignments from 1073 Salmonella enterica assemblies against E.coli reference genome, pangenome, and panproteome using BWA, GraphAligner, and PanPA, respectively; with PanPA aligning around 22% more sequences. We also aligned a DNA short-reads whole genome sequencing (WGS) sample from S.enterica against the E.coli reference with BWA and the panproteome with PanPA, where PanPA was able to find alignment for 68% of the reads compared to 5% with BWA.

Availalability and implementation
PanPA is available at https://github.com/fawaz-dabbaghieh/PanPA.
EnzymeNet: residual neural networks model for Enzyme Commission number prediction
Authors: Watanabe Naoki , Yamamoto Masaki , Murata Masahiro , Kuriya Yuki , Araki Michihiro 
Published: November 2023

Abstract

Motivation
Enzymes are key targets to biosynthesize functional substances in metabolic engineering. Therefore, various machine learning models have been developed to predict Enzyme Commission (EC) numbers, one of the enzyme annotations. However, the previously reported models might predict the sequences with numerous consecutive identical amino acids, which are found within unannotated sequences, as enzymes.

Results
Here, we propose EnzymeNet for prediction of complete EC numbers using residual neural networks. EnzymeNet can exclude the exceptional sequences described above. Several EnzymeNet models were built and optimized to explore the best conditions for removing such sequences. As a result, the models exhibited higher prediction accuracy with macro F1 score up to 0.850 than previously reported models. Moreover, even the enzyme sequences with low similarity to training data, which were difficult to predict using the reported models, could be predicted extensively using EnzymeNet models. The robustness of EnzymeNet models will lead to discover novel enzymes for biosynthesis of functional compounds using microorganisms.

Availability and implementation
The source code of EnzymeNet models is freely available at https://github.com/nwatanbe/enzymenet.
Hierarchical and automated cell-type annotation and inference of cancer cell of origin with Census
Authors: Ghaddar Bassel , De Subhajyoti 
Published: November 2023

Abstract

Motivation
Cell-type annotation is a time-consuming yet critical first step in the analysis of single-cell RNA-seq data, especially when multiple similar cell subtypes with overlapping marker genes are present. Existing automated annotation methods have a number of limitations, including requiring large reference datasets, high computation time, shallow annotation resolution, and difficulty in identifying cancer cells or their most likely cell of origin.

Results
We developed Census, a biologically intuitive and fully automated cell-type identification method for single-cell RNA-seq data that can deeply annotate normal cells in mammalian tissues and identify malignant cells and their likely cell of origin. Motivated by the inherently stratified developmental programs of cellular differentiation, Census infers hierarchical cell-type relationships and uses gradient-boosted \decision trees that capitalize on nodal cell-type relationships to achieve high prediction speed and accuracy. When benchmarked on 44 atlas-scale normal and cancer, human and mouse tissues, Census significantly outperforms state-of-the-art methods across multiple metrics and naturally predicts the cell-of-origin of different cancers. Census is pretrained on the Tabula Sapiens to classify 175 cell-types from 24 organs; however, users can seamlessly train their own models for customized applications.

Availability and implementation
Census is available at Zenodo https://zenodo.org/records/7017103 and on our Github https://github.com/sjdlabgroup/Census.