bluuebunny/crossref_metadata_2025_split huggingface dataset:
The impact of the COVID-19, social distancing, and movement restrictions on crime in NSW, Australia
Authors: Wang Joanna J. J. , Fung Thomas , Weatherburn Donald 
Published: October 2021

AbstractThe spread of COVID-19 has prompted Governments around the world to impose draconian restrictions on business activity, public transport, and public freedom of movement. The effect of these restrictions appears to vary from country to country and, in some cases, from one area to another within a country. This paper examines the impact of the COVID-19 restrictions imposed in New South Wales (NSW) by the State Government. We examine week-to-week changes in 13 categories of crime (and four aggregated categories) from 2 January 2017 to 28 June 2020. Rather than using the pre-intervention data to make a forecast and then comparing that with what is actually observed, we use a Box–Jenkins (ARIMA) approach to model the entire time series. Our results are broadly in accord with those of other studies, but we find no effect of the lockdown (upward or downward) on domestic assault.
Prediction of pandemic risk for animal-origin coronavirus using a deep learning method
Authors: Kou Zheng , Huang Yi-Fan , Shen Ao , Kosari Saeed , Liu Xiang-Rong , Qiang Xiao-Li 
Published: October 2021

AbstractBackgroundCoronaviruses can be isolated from bats, civets, pangolins, birds and other wild animals. As an animal-origin pathogen, coronavirus can cross species barrier and cause pandemic in humans. In this study, a deep learning model for early prediction of pandemic risk was proposed based on the sequences of viral genomes.MethodsA total of 3257 genomes were downloaded from the Coronavirus Genome Resource Library. We present a deep learning model of cross-species coronavirus infection that combines a bidirectional gated recurrent unit network with a one-dimensional convolution. The genome sequence of animal-origin coronavirus was directly input to extract features and predict pandemic risk. The best performances were explored with the use of pre-trained DNA vector and attention mechanism. The area under the receiver operating characteristic curve (AUROC) and the area under precision-recall curve (AUPR) were used to evaluate the predictive models.ResultsThe six specific models achieved good performances for the corresponding virus groups (1 for AUROC and 1 for AUPR). The general model with pre-training vector and attention mechanism provided excellent predictions for all virus groups (1 for AUROC and 1 for AUPR) while those without pre-training vector or attention mechanism had obviously reduction of performance (about 5–25%). Re-training experiments showed that the general model has good capabilities of transfer learning (average for six groups: 0.968 for AUROC and 0.942 for AUPR) and should give reasonable prediction for potential pathogen of next pandemic. The artificial negative data with the replacement of the coding region of the spike protein were also predicted correctly (100% accuracy). With the application of the Python programming language, an easy-to-use tool was created to implements our predictor.ConclusionsRobust deep learning model with pre-training vector and attention mechanism mastered the features from the whole genomes of animal-origin coronaviruses and could predict the risk of cross-species infection for early warning of next pandemic.Graphical Abstract
Prioritising interventions for preventing mental health problems for children experiencing adversity: a modified nominal group technique Australian consensus study
Authors: Hall Teresa , Honisett Suzy , Paton Kate , Loftus Hayley , Constable Leanne , Hiscock Harriet 
Published: October 2021

Abstract
Background
Despite the well-established link between childhood adversity and mental health problems, there is a dearth of evidence to inform decision making about the most acceptable and feasible interventions for preventing mental health problems for children experiencing adversity. Expert consensus is an important input into evidence-informed policy and practice but is often employed at the national level which misses important local contextual factors shaping decision making. This study aimed to: (1) reach consensus on local priority interventions for preventing mental health problems for children living with adversity in Wyndham, Victoria; and (2) understand the enabling factors and barriers to implementing these interventions.

Methods
This study employed six online modified nominal group technique (NGT) workshops with 19 stakeholders; intersectoral service providers from health, social and education sectors and caregivers of children aged 0–8 years.

Results
Three interventions reached consensus among the mixed stakeholder groups as being a high or very high priority for implementation in Wyndham: nurse home visiting, parenting programs and community-wide programs. Key rationales were the ability for these interventions to act as a gateway for families to increase their knowledge about topics immediately relevant to them (i.e. parenting), increase their knowledge about available supports and build relationships with service providers.

Conclusions
Local priorities for preventing mental health problems for children living with adversity emphasized relational approaches to service provision and were shaped by the availability of existing interventions and supports in the locality. The NGT was found to be an effective method for prioritising evidence-based practice interventions in health settings, engaging local stakeholders, and identifying enablers and barriers to implementation.
Landscape of Myeloid-derived Suppressor Cell in Tumor Immunotherapy
Authors: Hao Zhaonian , Li Ruyuan , Wang Yuanyuan , Li Shuangying , Hong Zhenya , Han Zhiqiang 
Published: October 2021

AbstractMyeloid-derived suppressor cells (MDSC) are a group of immature cells that produced by emergency myelopoiesis. Emerging evidences have identified the vital role of MDSC in cancer microenvironment, in which MDSC exerts both immunological and non-immunological activities to assist the progression of cancer. Advances in pre-clinical research have provided us the understanding of MDSC in cancer context from the perspective of molecular mechanism. In clinical scenario, MDSC and its subsets have been discovered to exist in peripheral blood and tumor site of patients from various types of cancers. In this review, we highlight the clinical value of MDSC in predicting prognosis of cancer patients and the responses of immunotherapies, therefore to propose the MDSC-inhibiting strategy in the scenario of cancer immunotherapies. Phenotypes and biological functions of MDSC in cancer microenvironment are comprehensively summarized to provide potential targets of MDSC-inhibiting strategy from the aspect of molecular mechanisms.
Neuropathology of SCA34 showing widespread oligodendroglial pathology with vacuolar white matter degeneration: a case study
Authors: Ozaki Kokoro , Irioka Takashi , Uchihara Toshiki , Yamada Akane , Nakamura Ayako , Majima Takamasa , Igarashi Susumu , Shintaku Hiroshi , Yakeishi Mayumi , Tsuura Yukio , Okazaki Yasushi , Ishikawa Kinya , Yokota Takanori 
Published: October 2021

AbstractSpinocerebellar ataxia type 34 (SCA34) is an autosomal dominant inherited ataxia due to mutations in ELOVL4, which encodes one of the very long-chain fatty acid elongases. SCA38, another spinocerebellar ataxia, is caused by mutations in ELOVL5, a gene encoding another elongase. However, there have been no previous studies describing the neuropathology of either SCA34 or 38. This report describes the neuropathological findings of an 83-year-old man with SCA34 carrying a pathological ELOVL4 mutation (NM_022726, c.736T>G, p.W246G). Macroscopic findings include atrophies in the pontine base, cerebellum, and cerebral cortices. Microscopically, marked neuronal and pontocerebellar fiber loss was observed in the pontine base. In addition, in the pontine base, accumulation of CD68-positive macrophages laden with periodic acid-Schiff (PAS)-positive material was observed. Many vacuolar lesions were found in the white matter of the cerebral hemispheres and, to a lesser extent, in the brainstem and spinal cord white matter. Immunohistological examination and ultrastructural observations with an electron microscope suggest that these vacuolar lesions are remnants of degenerated oligodendrocytes. Electron microscopy also revealed myelin sheath destruction. Unexpectedly, aggregation of the four-repeat tau was observed in a spatial pattern reminiscent of progressive supranuclear palsy. The tau lesions included glial fibrillary tangles resembling tuft-shaped astrocytes and neurofibrillary tangles and pretangles. This is the first report to illustrate that a heterozygous missense mutation in ELOVL4 leads to neuronal loss accompanied by macrophages laden with PAS-positive material in the pontine base and oligodendroglial degeneration leading to widespread vacuoles in the white matter in SCA34.
Ex vivo MRI atlas of the human medial temporal lobe: characterizing neurodegeneration due to tau pathology
Authors: Ravikumar Sadhana , Wisse Laura E. M. , Lim Sydney , Ittyerah Ranjit , Xie Long , Bedard Madigan L. , Das Sandhitsu R. , Lee Edward B. , Tisdall M. Dylan , Prabhakaran Karthik , Lane Jacqueline , Detre John A. , Mizsei Gabor , Trojanowski John Q. , Robinson John L. , Schuck Theresa , Grossman Murray , Artacho-Pérula Emilio , de Onzoño Martin Maria Mercedes Iñiguez , del Mar Arroyo Jiménez María , Muñoz Monica , Romero Francisco Javier Molina , del Pilar Marcos Rabal Maria , Sánchez Sandra Cebada , González José Carlos Delgado , de la Rosa Prieto Carlos , Parada Marta Córcoles , Irwin David J. , Wolk David A. , Insausti Ricardo , Yushkevich Paul A. 
Published: October 2021

AbstractTau neurofibrillary tangle (NFT) pathology in the medial temporal lobe (MTL) is closely linked to neurodegeneration, and is the early pathological change associated with Alzheimer’s disease (AD). To elucidate patterns of structural change in the MTL specifically associated with tau pathology, we compared high-resolution ex vivo MRI scans of human postmortem MTL specimens with histology-based pathological assessments of the MTL. MTL specimens were obtained from twenty-nine brain donors, including patients with AD, other dementias, and individuals with no known history of neurological disease. Ex vivo MRI scans were combined using a customized groupwise diffeomorphic registration approach to construct a 3D probabilistic atlas that captures the anatomical variability of the MTL. Using serial histology imaging in eleven specimens, we labelled the MTL subregions in the atlas based on cytoarchitecture. Leveraging the atlas and neuropathological ratings of tau and TAR DNA-binding protein 43 (TDP-43) pathology severity, morphometric analysis was performed to correlate regional MTL thickness with the severity of tau pathology, after correcting for age and TDP-43 pathology. We found significant correlations between tau pathology and thickness in the entorhinal cortex (ERC) and stratum radiatum lacunosum moleculare (SRLM). When focusing on cases with low levels of TDP-43 pathology, we found strong associations between tau pathology and thickness in the ERC, SRLM and the subiculum/cornu ammonis 1 (CA1) subfields of the hippocampus, consistent with early Braak stages.
Nutlet micromorphology and character evolution of Lappula species (Boraginaceae) and its systematic implications
Authors: Ebadi Mostafa , Nikzat Sedigheh 
Published: October 2021

Abstract
Background
The macro/micro-morphology of nutlets in 11 species (and 22 accessions) of the Boraginaceae family was investigated using stereomicroscope and scanning electron microscopy to evaluate the taxonomic relevance of the traits. To evaluate the phylogenetic significance of the character evolution, phylogenetic analysis was carried out by comparing available DNA sequence data from GenBank with selected original nutlet data.

Results
The Rochelieae nutlets' shape varied from ovoid (ovoid, ovoid-triangular, and ovoid-rectangular) to pyramid. Six major patterns were recognized based on the nutlet ultrastructure characters. Rocheliae is characterized by a transition from “without appendage” to “with tubercles and prickles” on the nutlet disk, and also via a shift from “lack of prickles” to “glossy prickles”.

Conclusions
The results show that the nutlet ultrastructure pattern of Rochelieae is systematically informative at the genus level, but not at the species level. Findings demonstrated that glochid is not an ancestral trait but is a synapomorphy and the transition to this trait occurred in the genus Lappula. The close boundary of nutlet microstructures between L. barbata and L. microcarpa has been discussed.
Intracystic papillary neoplasm of the gallbladder concomitant with xanthogranulomatous cholecystitis: a case report
Authors: Aida Takashi , Tsunematsu Masashi , Furukawa Kenei , Haruki Koichiro , Shirai Yoshihiro , Onda Shinji , Toyama Yoichi , Gomisawa Kazutaka , Takahashi Hiroyuki , Ikegami Toru 
Published: October 2021

Abstract
Background
The intracystic papillary neoplasm (ICPN) is a newly established disease concept. It has been regarded as a preinvasive neoplastic lesion, similar to intraductal papillary mucinous neoplasm of the pancreas. Limited information is available on the clinical and imaging features of ICPN.

Case presentation
A 65-year-old woman was referred to our hospital for assessment of a gallbladder tumor. Contrast-enhanced computed tomography showed a papillary tumor in the fundus of the gallbladder with irregular thickening of the gallbladder wall that spread into the cystic duct. The boundary between the tumor and liver was unclear. The patient was diagnosed with gallbladder cancer with liver invasion. We performed extended cholecystectomy with liver bed resection after confirming the absence of cancer cells in the resection margin of the cystic duct. After pathological examination, the tumor was diagnosed as an ICPN with xanthogranulomatous cholecystitis. The patient was discharged on postoperative day 8 with no complications.

Conclusions
We have described a rare case of ICPN concomitant with xanthogranulomatous cholecystitis. Clinicians should include ICPN as a differential diagnosis in patients with a papillary or polypoid tumor in the gallbladder.
Facilitating treatment engagement for early psychosis through peer-delivered decision support: intervention development and protocol for pilot evaluation
Authors: Thomas Elizabeth C. , Suarez John , Lucksted Alicia , Siminoff Laura A. , Hurford Irene , Dixon Lisa B. , O’Connell Maria , Penn David L. , Salzer Mark S. 
Published: October 2021

Abstract
Background
Emerging adults with early psychosis demonstrate high rates of service disengagement from critical early intervention services. Decision support interventions and peer support have both been shown to enhance service engagement but are understudied in this population. The purposes of this article are to describe the development of a novel peer-delivered decision coaching intervention for this population and to report plans for a pilot study designed to gather preliminary data about its feasibility, acceptability, and potential impact.

Methods
The intervention was developed based on formative qualitative data and in collaboration with a diverse team of researchers, key stakeholders, and expert consultants. The pilot trial will utilize a single-group (N = 20), pre-post, convergent mixed-methods design to explore whether and how the intervention addresses decision-making needs (the primary intervention target). The impact of the intervention on secondary outcomes (e.g., engagement in the program) will also be assessed. Additionally, through observation and feedback from the peer decision coach and study participants, we will evaluate the feasibility of research and intervention procedures, and the acceptability of information and support from the peer decision coach.

Discussion
The peer-delivered decision coaching intervention holds promise for assisting young people with making informed and values-consistent decisions about their care, and potentially enhancing service engagement within this traditionally difficult-to-engage population. If the intervention demonstrates feasibility and acceptability, and pilot data show its potential for improving treatment decision-making, our work will also lay the foundation for a new evidence base regarding roles for peer specialists on early intervention teams.

Trial registration
This trial was registered with ClinicalTrials.gov (Identifier: NCT04532034) on 28 August 2020 as Temple University Protocol Record 261047, Facilitating Engagement in Evidence-Based Treatment for Early Psychosis.
The effect of rehabilitation protocol using mobile health in overweight and obese patients with knee osteoarthritis: a clinical trial
Authors: Rafiq Muhammad Tariq , Abdul Hamid Mohamad Shariff , Hafiz Eliza 
Published: October 2021

Abstract
Objective
The objective of this randomized controlled trial (RCT) was to investigate the effectiveness of the lower limb rehabilitation protocol (LLRP) combined with mobile health (mHealth) applications on knee pain, mobility, functional activity and activities of daily living (ADL) among knee osteoarthritis (OA) patients who were overweight and obese.

Methods
This study was a single-blind, RCT conducted at Teaching Bay of Rehmatul-Lil-Alameen Post Graduate Institute of Cardiology between February and November 2020. 114 knee OA patients who were overweight and obese were randomly divided by a computer-generated number into the rehabilitation group with mHealth (RGw-mHealth) to receive LLRP + instructions of daily care (IDC) combined with mHealth intervention, rehabilitation group without mHealth (RGwo-mHealth) to receive LLRP + IDC intervention and control group (CG) to receive IDC intervention. All three groups were also provided leaflets explaining about their intervention. The primary outcome measure was knee pain measured by the Western Ontario and McMaster Universities Osteoarthritis Index score. The secondary outcome measures were mobility measured by the Timed up and go (TUG) test, functional activity measured by the patient-specific functional scale (PSFS), and ADL measured by the Katz Index of independence in ADL scores.

Results
Among the 114 patients who were randomized (mean age, 53 years), 96 (84%) completed the trial. After 3-months of intervention, patients in all three groups had statistically significant knee pain reduction (RGw-mHealth: 2.54; RGwo-mHealth: 1.47; and CG: 0.37) within groups (P < 0.05). Furthermore, patients in the RGw-mHealth and RGwo-mHealth had statistically significant improvement in mobility, functional activity, and ADL within groups (P < 0.05), but no improvement was noted in the CG (p > 0.05). As indicated in the overall analysis of covariance, there were statistically significant differences in the mean knee pain, mobility, functional activity, and ADL changes between groups after 3-months (p < 0.001). The pairwise between-group comparisons (Bonferroni post hoc analysis) of the knee pain, mobility, functional activity, and ADL scores at 3-months revealed that patients in the RGw-mHealth had significantly higher mean change in the knee pain, TUG test, functional activity, and ADL scores compared to patients in the RGwo-mHealth or CG.

Conclusion
Reduction in knee pain, improvement in mobility, functional activity, and ADL were more among patients in the RGw-mHealth compared with the RGwo-mHealth or CG.
Trial registration National Medical Research Registry: NMRR-20-1094-52911. Date of registration: 05–05-2020. URL: https://www.nmrr.gov.my.
Leveraging host-genetics and gut microbiota to determine immunocompetence in pigs
Authors: Ramayo-Caldas Yuliaxis , Zingaretti Laura M. , Pérez-Pascual David , Alexandre Pamela A. , Reverter Antonio , Dalmau Antoni , Quintanilla Raquel , Ballester Maria 
Published: October 2021

Abstract
Background
The gut microbiota influences host performance playing a relevant role in homeostasis and function of the immune system. The aim of the present work was to identify microbial signatures linked to immunity traits and to characterize the contribution of host-genome and gut microbiota to the immunocompetence in healthy pigs.

Results
To achieve this goal, we undertook a combination of network, mixed model and microbial-wide association studies (MWAS) for 21 immunity traits and the relative abundance of gut bacterial communities in 389 pigs genotyped for 70K SNPs. The heritability (h2; proportion of phenotypic variance explained by the host genetics) and microbiability (m2; proportion of variance explained by the microbial composition) showed similar values for most of the analyzed immunity traits, except for both IgM and IgG in plasma that was dominated by the host genetics, and the haptoglobin in serum which was the trait with larger m2 (0.275) compared to h2 (0.138). Results from the MWAS suggested a polymicrobial nature of the immunocompetence in pigs and revealed associations between pigs gut microbiota composition and 15 of the analyzed traits. The lymphocytes phagocytic capacity (quantified as mean fluorescence) and the total number of monocytes in blood were the traits associated with the largest number of taxa (6 taxa). Among the associations identified by MWAS, 30% were confirmed by an information theory network approach. The strongest confirmed associations were between Fibrobacter and phagocytic capacity of lymphocytes (r = 0.37), followed by correlations between Streptococcus and the percentage of phagocytic lymphocytes (r = -0.34) and between Megasphaera and serum concentration of haptoglobin (r = 0.26). In the interaction network, Streptococcus and percentage of phagocytic lymphocytes were the keystone bacterial and immune-trait, respectively.

Conclusions
Overall, our findings reveal an important connection between gut microbiota composition and immunity traits in pigs, and highlight the need to consider both sources of information, host genome and microbial levels, to accurately characterize immunocompetence in pigs.
A review of crack growth models for near-neutral pH stress corrosion cracking on oil and gas pipelines
Authors: Sun Haotian , Zhou Wenxing , Kang Jidong 
Published: October 2021

AbstractThis paper presents a review of four existing growth models for near-neutral pH stress corrosion cracking (NNpHSCC) defects on buried oil and gas pipelines: Chen et al.’s model, two models developed at the Southwest Research Institute (SwRI) and Xing et al.’s model. All four models consider corrosion fatigue enhanced by hydrogen embrittlement as the main growth mechanism for NNpHSCC. The predictive accuracy of these growth models is investigated based on 39 crack growth rates obtained from full-scale tests conducted at the CanmetMATERIALS of Natural Resources Canada of pipe specimens that are in contact with NNpH soils and subjected to cyclic internal pressures. The comparison of the observed and predicted crack growth rates indicates that the hydrogen-enhanced decohesion (HEDE) component of Xing et al.’s model leads to on average reasonably accurate predictions with the corresponding mean and coefficient of variation (COV) of the observed-to-predicted ratios being 1.06 and 61.2%, respectively. The predictive accuracy of the other three models are markedly poorer. The analysis results suggest that further research is needed to improve existing growth models or develop new growth models to facilitate the pipeline integrity management practice with respect to NNpHSCC.