bluuebunny/crossref_metadata_2025_split huggingface dataset:
Parosteal lipoma of the forearm
Authors: Al-Mnayyis Asma’a , Al Sharie Sarah , Araydah Mohammad , Talafha Muna , Haddad Fadi 
Published: November 2021

Abstract

Rationale:
Parosteal lipomas are rare neoplasms comprising mature adipocytes situated in a proximity to bone. Although these tumors follow a benign course, the reactive osseous changes that may occur with such lesions might raise the suspicion of malignancy.

Patient Concerns:
Here we present a case of a 33-year-old male patient complaining of pain and swelling in the right anterior forearm without history of trauma.

Diagnosis:
An magnetic resonance imaging of the region revealed a lobulated intramuscular fat intensity mass within the supinator muscle. Bony projection inseparable from the anterolateral radial diaphyseal cortex and periosteum was also seen. The radiological features suggested the diagnosis of parosteal lipoma.

Intervention:
After the radiological diagnosis of a parosteal lipoma, the patient was offered a total surgical excision of the mass.

Outcomes:
The mass was removed successfully. Histopathology showed mature benign adipose tissue bordered by thin fibrous septa confirming the diagnosis of parosteal lipoma. Follow-up magnetic resonance imaging after 6 months did not reveal any signs of complications or recurrence.

Lessons:
Distinction of the features of parosteal lipomas is needed to establish the accurate diagnosis, discriminate it from malignant lesions, predict potential neurovascular compromises, and follow up until a curative action is planned.
Bilateral cavernous sinus dural arteriovenous fistula with initial ocular symptom
Authors: Zhang Qian , Xu Xiao-Ling , Sun Ya-Li , Wang Zi-Wei , Lai Xian-Liang , Xiong Yu 
Published: November 2021

Abstract

Rationale:
Cavernous sinus dural arteriovenous fistula (CSDAVF) is a rare intracranial vascular malformation. Because of its complicated clinical manifestations, it is easy to miss or misdiagnose CSDAVF.

Patient concerns:
A 42-year-old female had chief complaint that the right eyeball had conjunctival congestion for half a year. She was given levofloxacin eye drops to treat the right eye with anti-inflammatory treatment, but the symptoms did not improve. Cranial magnetic resonance and cerebrovascular imaging showed that the right lateral rectus muscle was slightly enlarged, the right eyeball was prominent, but there was no abnormality in the brain.

Diagnoses:
Based on clinical and imaging examinations and digital subtraction angiography (DSA), she was diagnosed as low-flow CSDAVF.

Interventions:
The patient received interventional embolization with transvenous combined arterial approach using coils and Onyx liquid glue.

Outcomes:
The patient's exophthalmos and congestion symptoms were improved.

Conclusion:
DAS is the gold standard for the diagnose of CSDAVF. Intravascular embolization interventional therapy is an effective treatment for CSDAVF.
Effectiveness and safety of Xinkeshu on coronary artery disease patients combined with anxiety and depression symptoms after percutaneous coronary intervention
Authors: Chen Mingtai , Zhong Guofu , Men Ling , Liu Qiang , Luan Jienan 
Published: November 2021

Abstract

Background:
It's known that coronary heart disease (CHD) patients after percutaneous coronary intervention (PCI) was significantly associated with anxiety and depression symptoms. Several studies have showed that Xinkeshu tablet (XKS), a kind of Chinese herbal medicine, could effectively improve post-PCI postoperative mood disorders in CHD patients. However, the intensity of evidence has been poor, limiting the further clinical application of XKS to patients above. This systematic review and meta-analysis will assess the effectiveness and safety of studies of XKS in CHD patients with anxiety and depression symptoms after PCI.

Methods:
A systematic literature search for articles up to December 2021 will be performed in following electronic databases: PubMed, Embase, the Cochrane Library, China National Knowledge Infrastructure, Chinese Scientific Journals Database Database, Chinese Biomedical Database, Chinese Biomedical Literature Service System, and Wanfang Database. Inclusion criteria are randomized controlled trials of XKS applied on patients with CHD and depression. The primary outcome measures will be CHD-related clinical evaluation (frequency of acute attack angina, severity of angina pectoris, electrocardiographic changes, amount of nitroglycerin) and the scores or reducing fractions of depressive and anxiety measuring scales (the Hospital Anxiety/Depression Scale or other widely used anxiety/depression scale). The safety outcome measures will be adverse events, liver and kidney function. RevMan 5.3 software will be used for data synthesis, sensitivity analysis, subgroup analysis, and risk of bias assessment. A funnel plot will be developed to evaluate reporting bias. Stata 12.0 will be used for meta-regression and Egger tests. We will use the Grading of Recommendations Assessment, Development and Evaluation system to assess the quality of evidence.

Discussion:
This study will provide a high-quality synthesis of the effects and safety of XKS for CHD patients with anxiety and depression symptoms after PCI.

Ethics and dissemination:
This systematic review does not require ethics approval and will be submitted to a peer-reviewed journal.
Trial registration number PROSPERO CRD42019131346.
Comparison of microendoscopic discectomy and percutaneous transforaminal endoscopic discectomy for upper lumbar disc herniation
Authors: Xu WeiJun , Yang Bingxuan , Lai Xidan , Hong Xinxin , Chen Zihao , Yu Dongqing 
Published: November 2021

Abstract

Background:
Microendoscopic discectomy (MED) and percutaneous transforaminal endoscopic discectomy (PTED), as two alternative surgical techniques in minimally invasive spine surgery (MISS), are widely conducted in the treatment of upper lumbar disc herniation (ULDH). This study will systematically assess and compare the clinical outcomes of MED and PTED in treating ULDH combining with the meta-analysis.

Methods:
All the randomized controlled trials (RCTs) will be searched at the databases including PubMed, EMBASE, Cochrane Library and Web of Science, China National Knowledge Infrastructure (CNKI), Chinese Biomedical Literature Database (CBM), Chinese Scientific Journal Database (VIP), and WANFANG Database from inception to December 2025. The primary outcome will involve Japanese Orthopedic Association (JOA), Oswestry disability index (ODI), and visual analog scale (VAS) scores. The secondary outcomes will be the short-form 36-item (SF-36) health survey questionnaire and the modified MacNab criterion. We will perform data synthesis, subgroup analysis, sensitivity analysis, meta-regression analysis, and the assessment of reporting bias using RevMan 5.3 software.

Results:
This systematic review will comprehensively evaluate the clinical outcomes of comparison of MED and PTED in the treatment of ULDH and provide a reliable and high-quality evidence.

Conclusion:
The conclusion of this study will elucidate the clinical outcomes of MED compared with PTED and clarify whether PTED generates better clinical effects than MED in treating ULDH.

PROSPERO registration number:
CRD 42021244204
CNN3 in glioma
Authors: Xu Hao , Chai Song-shan , Lv Peng , Wang Jia-jing 
Published: November 2021

Abstract

Background:
Gliomas are the most intrinsic type of primary intracranial tumors. The protein encoded by The calponin 3 (CNN3) has been proven to be a member of the calponin family. Its relationships with cervical cancer, colorectal cancer, gastric cancer, and colon cancer have been emphasized by several studies. Our research aims to explore the prognosis value and immunotherapeutic targetability of CNN3 in glioma patients using bioinformatics approach.

Methods:
CNN3 expression in glioma was analyzed based on GEO and TCGA datasets. Gene expression profiling with clinical information was employed to investigate the correlation between clinicopathological features of glioma patients and relative CNN3 expression levels. Survival analysis was conducted using Kaplan-Meier analysis and the Cox proportional-hazards regression model. Gene set enrichment analysis was conducted to select the pathways significantly enriched for CNN3 associations. Correlations between inflammatory activities, immune checkpoint molecules and CNN3 were probed by gene set variation analysis, correlograms, and correlation analysis.

Results:
CNN3 was enriched in gliomas, and high expression of CNN3 correlated with worse clinicopathological features and prognosis. Associations between CNN3 and several immune-related pathways were confirmed using a bioinformatics approach. Correlation analysis revealed that CNN3 was associated with inflammatory and immune activities, tumor microenvironment, and immune checkpoint molecules.

Conclusion:
Our results indicate that high CNN3 expression levels predict poor prognosis, and CNN3 may be a promising immunotherapy target.
Usefulness of Jackson mask ventilation during bronchoscopy in patients with acute respiratory failure
Authors: Takumida Hiroshi , Suzuki Manabu , Suzuki Tomoyuki , Sakamoto Keita , Hashimoto Masao , Ishii Satoru , Naka Go , Iikura Motoyasu , Izumi Shinyu , Takeda Yuichiro , Hojo Masayuki , Sugiyama Haruhito 
Published: November 2021

Abstract
Bronchoscopy is a procedure for diagnosis and treatment decision-making in patients with lung disease, especially those with acute respiratory failure. However, the optimal bronchoscopic method for patients with acute respiratory failure is not known. Therefore, in the real world, we sometimes hesitate to perform bronchoscopy in such patients because of safety and have experienced treating patients without bronchoscopy. To address this problem, we evaluated the usefulness and safety of Jackson mask ventilation, a novel noninvasive method of bronchoscopy performed under mask ventilation using the Jackson Rees circuit, in patients with acute respiratory failure.
We retrospectively reviewed patients with acute respiratory failure who underwent bronchoscopy at our institution between January 2015 and May 2018. We compared patients who received Jackson mask ventilation (Jackson group) and those who received conventional oxygen administration (conventional group). Mean percutaneous oxygen saturation (SpO2) and mean oxygen flow rate were compared between the groups by the Wilcoxon signed-rank test. We excluded patients who were intubated and those without acute respiratory failure who received Jackson mask ventilation preventively.
Of 1262 patients who underwent bronchoscopy, 12 were classified into the Jackson group and 13 into the conventional group. Proper oxygenation was maintained in the Jackson group, with SpO2 increasing after Jackson mask ventilation (89.4% to 96.8%, P = .03). Mean SpO2 was significantly higher in the Jackson group than in the conventional group (96.8% vs 95.2%, P = .03). Mean oxygen flow rate was significantly lower in the Jackson group (4.0 L/min vs 7.9 L/min, P < .001). There was no significant difference in safety.
Our findings suggest that Jackson mask ventilation is safe and effective when performing bronchoscopy in patients with acute respiratory failure. Jackson mask ventilation maintained proper oxygenation and decreased the oxygen flow rate compared with the conventional method. Using Jackson mask ventilation, we could perform bronchoscopy safely and effectively in patients with acute respiratory failure, including some who had unstable respiratory status. (UMIN000038481).
The long-term success of mandatory vaccination laws at implementing the first vaccination campaign in 19thcentury rural Finland
Authors: Ukonaho Susanna , Lummaa Virpi , Briga Michael 
Published: November 2021

AbstractIn high income countries, childhood infections are on the rise, a phenomenon in part attributed to persistent hesitancy towards vaccines. To combat vaccine hesitancy, several countries recently made vaccinating children mandatory, but the effect of such vaccination laws on vaccination coverage remains debated and the long-term consequences are unknown. Here we quantified the consequences of vaccination laws on the vaccination coverage monitoring for a period of 63 years rural Finland’s first vaccination campaign against the highly lethal childhood infection smallpox. We found that annual vaccination campaigns were focussed on children up to 1 year old, but that their vaccination coverage was low and declined with time until the start of the vaccination law, which stopped the declining trend and was associated with an abrupt coverage increase of 20 % to cover >80 % of all children. Our results indicate that vaccination laws had a long-term beneficial effect at increasing the vaccination coverage and will help public health practitioners to make informed decisions on how to act against vaccine hesitancy and optimise the impact of vaccination programmes.
WebSeq: A Genomic Data Analytics Platform for Monogenic Disease Discovery
Authors: Agarwal Milind , Ghimire Kshitiz , Cogan Joy D. ,   Undiagnosed Disease Network, Markle Janet 
Published: November 2021

AbstractWhole exome sequencing (WES) is commonly used to study monogenic diseases. The application of this sequencing technology has gained in popularity amongst clinicians and researchers as WES pricing has declined. The accumulation of WES data creates a need for a robust, flexible, scalable and easy-to-use analytics platform to allow researchers to gain biological insight from this genomic data. We present WebSeq, a self-contained server and web interface to facilitate intuitive analysis of WES data. WebSeq provides access to sophisticated tools and pipelines through a user-friendly and modern web interface. WebSeq has modules that support i) FASTQ to VCF conversion, ii) VCF to ANNOVAR1 CSV conversion, iii) family-based analyses for Mendelian disease gene discovery, iv) cohort-wide gene enrichment analyses, (v) an automated IGV2 browser, and (vi) a ‘virtual gene panel’ analysis module. WebSeq Pro, our expanded pipeline, also supports SNP genotype analyses such as ancestry inference and kinship testing. WebSeq Lite, our minimal pipeline, supports family-based analyses, cohort-wide gene enrichment analyses, and a virtual gene panel along with the IGV2 browser module. We anticipate that the rigorous use of our web application will allow researchers to expedite discoveries from human genomic data3. WebSeq Lite, WebSeq, and WebSeq Pro are fully containerized using Docker4, run on all major operating systems, and are freely available for personal, academic, and non-profit use at http://bitly.ws/g6cn
Aging and interferon gamma response drive the phenotype of neutrophils in the inflamed joint
Authors: Grieshaber-Bouyer Ricardo , Exner Tarik , Hackert Nicolaj S. , Radtke Felix A. , Jelinsky Scott A. , Halyabar Olha , Wactor Alexandra , Karimizadeh Elham , Schettini Jorge , Jonsson A. Helena , Rao Deepak A. , Henderson Lauren A. , Müller-Tidow Carsten , Lorenz Hanns-Martin , Wabnitz Guido , Lederer James A. , Hadjipanayis Angela , Nigrovic Peter A. 
Published: November 2021

ABSTRACTObjectivesNeutrophils are typically the most abundant leukocyte in arthritic synovial fluid. We sought to understand changes that occur in neutrophils as they migrate from blood to joint.MethodsWe performed RNA sequencing of neutrophils from healthy human blood, arthritic blood, and arthritic synovial fluid, comparing transcriptional signatures with those from murine K/BxN serum transfer arthritis. We employed mass cytometry to quantify protein expression and sought to reproduce the synovial fluid phenotypeex vivoin cultured healthy blood neutrophils.ResultsBlood neutrophils from healthy donors and patients with active arthritis exhibited largely similar transcriptional signatures. By contrast, synovial fluid neutrophils exhibited more than 1,600 differentially expressed genes. Gene signatures identified a prominent response to interferon gamma (IFNγ), as well as to tumor necrosis factor, interleukin 6, and hypoxia, in both humans and mice. Mass cytometry also found healthy and arthritic donor blood neutrophils largely indistinguishable but revealed a range of neutrophil phenotypes in synovial fluid defined by downregulation of CXCR1 and upregulation of FcγRI, HLA-DR, PD-L1, ICAM-1 and CXCR4. Reproduction of key elements of this signature in cultured blood neutrophils required both IFNγ and prolonged culture.ConclusionsCirculating neutrophils from arthritis patients resemble those from healthy controls, but joint fluid cells exhibit a network of changes, conserved across species, that implicate IFNγ response and aging as complementary drivers of the synovial neutrophil phenotype.KEY MESSAGESWhat is already known about this subject?Neutrophils are central in the effector phase of inflammatory arthritis but their phenotypic heterogeneity in inflamed synovial fluid is poorly understood.What does this study add?RNA-seq and mass cytometry identify a hallmark phenotype of neutrophils in synovial fluid consisting of upregulated ICAM-1, HLA-DR, PD-L1, Fc receptors and CXCR4.Transcriptomics highlight an IFNγ response signature conserved across humans and mice.In vitro experiments implicate aging and IFNγ as complementary factors orchestrating the synovial fluid neutrophil phenotype.How might this impact on clinical practice or future developments?Understanding the specific features of neutrophils in the arthritic joint may disclose opportunities for safe therapeutic targeting of this lineage.
The Flip-flop neuron – A memory efficient alternative for solving challenging sequence processing and decision making problems
Authors: Kumari Sweta , Vigneswaran C , Chakravarthy V. Srinivasa 
Published: November 2021

ABSTRACTSequential decision making tasks that require information integration over extended durations of time are challenging for several reasons including the problem of vanishing gradients, long training times and significant memory requirements. To this end we propose a neuron model fashioned after the JK flip-flops in digital systems. A flip-flop is a sequential device that can store state information of the previous history. We incorporate the JK flip-flop neuron into several deep network architectures and apply the networks to difficult sequence processing problems. The proposed architectures include flip-flop neural networks (FFNNs), bidirectional flip-flop neural networks (BiFFNNs), convolutional flip-flop neural networks (ConvFFNNs), and bidirectional convolutional flip-flop neural networks (BiConvFFNNs). Learning rules of proposed architectures have also been derived. We have considered the most popular benchmark sequential tasks like signal generation, sentiment analysis, handwriting generation, text generation, video frame prediction, lung volume prediction, and action recognition to evaluate the proposed networks. Finally, we compare the results of our networks with the results from analogous networks with Long Short-Term Memory (LSTM) neurons on the same sequential tasks. Our results show that the JK flip-flop networks outperform the LSTM networks significantly or marginally on all the tasks, with only half of the trainable parameters.
Mitochondrial OPA1 deficiency causes reversible defects in adult neurogenesis-associated spatial memory in mice
Authors: Andraini Trinovita , Moulédous Lionel , Petsophonsakul Petnoi , Florian Cédrick , Lopez Sébastien , Botella-Daloyau Marlène , Arrázola Macarena , Nikolla Kamela , Philip Adam , Leydier Alice , Marque Manon , Arnauné-Pelloquin Laetitia , Belenguer Pascale , Rampon Claire , Miquel Marie-Christine 
Published: November 2021

AbstractMitochondria are integrative hubs central to cellular adaptive pathways. Such pathways are critical in highly differentiated post-mitotic neurons, the plasticity of which sustains brain function. Consequently, defects in mitochondrial dynamics and quality control appear instrumental in neurodegenerative diseases and may also participate in cognitive impairments. To directly test this hypothesis, we analyzed cognitive performances in a mouse mitochondria-based disease model, due to haploinsufficiency in the mitochondrial optic-atrophy-type-1 (OPA1) protein. While in Dominant Optic Atrophy (DOA) models, the known main symptoms are late onset visual deficits, we discovered early impairments in hippocampus-dependent spatial memory attributable to defects in adult neurogenesis. Moreover, less connected hippocampal adult-born neurons showed a decrease in mitochondrial content. Remarkably, modulating mitochondrial function through voluntary exercise or pharmacological treatment restored spatial memory.Altogether, our study identifies a crucial role for OPA1-dependent mitochondrial functions in adult neurogenesis, and thus in hippocampal-dependent cognitive functions. More generally, our findings show that adult neurogenesis is highly sensitive to mild mitochondrial defects, generating impairments in spatial memory that can be detected at an early stage and counterbalanced by physical exercise and pharmacological targeting of mitochondrial dynamics. Thus, early amplification of mitochondrial function appears beneficial for late-onset neurodegenerative diseases.
Rapid adaptation often occurs through mutations to the most highly conserved positions of the RNA polymerase core enzyme
Authors: Cohen Yasmin , Hershberg Ruth 
Published: November 2021

AbstractMutations to the genes encoding the RNA polymerase core enzyme (RNAPC) and additional housekeeping regulatory genes were found to be involved in rapid adaptation, in the context of numerous evolutionary experiments, in which bacteria were exposed to diverse selective pressures. This provides a conundrum, as the housekeeping genes that were so often mutated in response to these diverse selective pressures tend to be among the genes that are most conserved in their sequences across the bacterial phylogeny. In order to further examine this apparent discrepancy, we characterized the precise positions of the RNAPC involved in adaptation to a large variety of selective pressures. We found that different positions of the RNAPC are involved in adaptation to various stresses, with very little overlap found between stresses. We further found that RNAPC positions involved in adaptation tended to be more evolutionary conserved, were more likely to occur within defined protein domains, and tended to be closer to the complex’s active site, compared to all other RNAPC positions. Finally, we could show that this observed trend of higher conservation of positions involved in rapid adaptation extends beyond the RNAPC to additional housekeeping genes. Combined, our results demonstrate that the positions that change most readily in response to well defined selective pressures exerted in lab environments are also those that evolve most slowly in nature. This suggests that such adaptations may not readily occur in nature, due to their antagonistically pleiotropic effects, or that if they do occur in nature, they are highly transient.
A neural mechanism for detecting object motion during self-motion
Authors: Kim HyungGoo R. , Angelaki Dora E. , DeAngelis Gregory C. 
Published: November 2021

ABSTRACTDetecting objects that move in a scene is a fundamental computation performed by the visual system. This computation is greatly complicated by observer motion, which causes most objects to move across the retinal image. How the visual system detects scene-relative object motion during self-motion is poorly understood. Human behavioral studies suggest that the visual system may identify local conflicts between motion parallax and binocular disparity cues to depth, and may use these signals to detect moving objects. We describe a novel mechanism for performing this computation based on neurons in macaque area MT with incongruent depth tuning for binocular disparity and motion parallax cues. Neurons with incongruent tuning respond selectively to scene-relative object motion and their responses are predictive of perceptual decisions when animals are trained to detect a moving object during self-motion. This finding establishes a novel functional role for neurons with incongruent tuning for multiple depth cues.