bluuebunny/crossref_metadata_2025_split huggingface dataset:
An organoid library of salivary gland tumors reveals subtype-specific characteristics and biomarkers
Authors: Wang Bo , Gan Jiaxing , Liu Zhengyan , Hui Zhixuan , Wei Jinhui , Gu Xiaolian , Mu Yabing , Zang Guangxiang 
Published: December 2022

Abstract
Background
Salivary gland tumors (SGTs) include a large group of rare neoplasms in the head and neck region, and the heterogeneous and overlapping features among the subtypes frequently make diagnostic difficulties. There is an urgent need to understand the cellular mechanisms underlying the heterogeneity and overlap among the subtypes, and explore the subtype-specific diagnostic biomarkers.

Methods
The tumor tissue and the adjacent normal tissue from the 6 most common types of SGTs were processed for organoid culture which only maintained tumor epithelial cells. Organoids were histologically evaluated based on phenotype markers, followed by transcriptional profiling using RNA-sequencing. The transcriptomic similarities and differences among the subtypes were analyzed by subtype consensus clustering and hierarchical clustering. Furthermore, by comparative transcriptional analysis for these 6 types of SGTs and the matched organoids, the potential diagnostic biomarkers from tumor epithelium were identified, in which two selected biomarkers were evaluated by qPCR and confirmed by immunohistochemistry staining using a tissue microarray.

Results
We generated a biobank of patient-derived organoids (PDOs) with 6 subtypes of SGTs, including 21 benign and 24 malignant SGTs. The PDOs recapitulated the morphological and transcriptional characteristics of the parental tumors. The overlap in the cell types and the heterogenous growth patterns were observed in the different subtypes of organoids. Comparing the bulk tissues, the cluster analysis of the PDOs remarkably revealed the epithelial characteristics, and visualized the intrinsic relationship among these subtypes. Finally, the exclusive biomarkers for the 6 most common types of SGTs were uncovered by comparative analysis, and PTP4A1 was demonstrated as a useful diagnostic biomarker for mucoepidermoid carcinoma.

Conclusions
We established the first organoid biobank with multiple subtypes of SGTs. PDOs of SGTs recapitulate the morphological and transcriptional characteristics of the original tumors, which uncovers subtype-specific biomarkers and reveals the molecular distance among the subtype of SGTs.
Clinical indications and acquisition protocol for the use of dynamic contrast-enhanced MRI in head and neck cancer squamous cell carcinoma: recommendations from an expert panel
Authors: Romeo Valeria , Stanzione Arnaldo , Ugga Lorenzo , Cuocolo Renato , Cocozza Sirio , Quarantelli Mario , Chawla Sanjeev , Farina Davide , Golay Xavier , Parker Geoff , Shukla-Dave Amita , Thoeny Harriet , Vidiri Antonello , Brunetti Arturo , Surlan-Popovic Katarina , Bisdas Sotirios 
Published: December 2022

Abstract
Background
The clinical role of perfusion-weighted MRI (PWI) in head and neck squamous cell carcinoma (HNSCC) remains to be defined. The aim of this study was to provide evidence-based recommendations for the use of PWI sequence in HNSCC with regard to clinical indications and acquisition parameters.

Methods
Public databases were searched, and selected papers evaluated applying the Oxford criteria 2011. A questionnaire was prepared including statements on clinical indications of PWI as well as its acquisition technique and submitted to selected panelists who worked in anonymity using a modified Delphi approach. Each panelist was asked to rate each statement using a 7-point Likert scale (1 = strongly disagree, 7 = strongly agree). Statements with scores equal or inferior to 5 assigned by at least two panelists were revised and re-submitted for the subsequent Delphi round to reach a final consensus.

Results
Two Delphi rounds were conducted. The final questionnaire consisted of 6 statements on clinical indications of PWI and 9 statements on the acquisition technique of PWI. Four of 19 (21%) statements obtained scores equal or inferior to 5 by two panelists, all dealing with clinical indications. The Delphi process was considered concluded as reasons entered by panelists for lower scores were mainly related to the lack of robust evidence, so that no further modifications were suggested.

Conclusions
Evidence-based recommendations on the use of PWI have been provided by an independent panel of experts worldwide, encouraging a standardized use of PWI across university and research centers to produce more robust evidence.
Integrated chromatin accessibility and DNA methylation analysis to reveal the critical epigenetic modification and regulatory mechanism in gonadal differentiation of the sequentially hermaphroditic fish, Monopterus albus
Authors: Hu Qiaomu , Lian Zitong , Xia Xueping , Tian Haifeng , Li Zhong 
Published: December 2022

AbstractBackgroundMonopterus albusis a hermaphroditic and economically farmed fish that undergoes sex reversal from ovary to testis via ovotestis during gonadal development. The epigenetic changes that are associated with gonadal development in this species remain unclear.MethodsWe produced DNA methylome, transcriptome, and chromatin accessibility maps of the key stages of gonad development: ovary, ovotestis, and testis. The expression of the key candidate genes was detected using qRT-PCR and in situ hybridization and the methylation levels were analysed using bisulphite sequencing PCR. Promoter activity and regulation were assessed using dual-luciferase reporter assays.ResultsGonadal development exhibits highly dynamic transcriptomic, DNA methylation, and chromatin accessibility changes. We found that DNA methylation status, especially of the transcription start site, was significantly negatively correlated with gene expression while chromatin accessibility exhibited no correlation with gene expression during gonadal development. The epigenetic signatures revealed many novel regulatory elements and genes involved in sex reversal, which were validated. DNA methylation detection and site mutation of plastin-2 promoter, as a candidate gene, revealed that DNA methylation could impact the binding of transcription factor dmrt1 and foxl2 through methylation and demethylation to regulate plastin-2 expression during gonadal development.ConclusionsThese data provide novel insights into epigenetic modification and help elucidate the potential molecular mechanism by which dynamic modification of DNA methylation plays a crucial role in gonadal development.
Eat, pray, love: disordered eating in religious and non-religious men and women
Authors: Beaulieu Danie A. , Best Lisa A. 
Published: December 2022

Abstract
Background
Despite the lack of research examining the relation between religiosity and disordered eating, at various points during the year, religious practices requiring changes in eating habits are typical. Few studies have identified how aspects of religiosity are associated with disordered eating attitudes and behaviours. Thus, we explored the interconnectedness of religiosity and gender on disordered eating attitudes and behaviours.

Methods
In total, 749 religious and non-religious participants completed online questionnaires assessing components of disordered eating and associated appearance-related pressures and internalizations (pressure from family, peers, and media, and internalization of the thin and muscular ideals).

Results
Among the 317 participants who identified as religious, 12.30% reported that their religious practice required a change in their eating habits, and 10.68% reported that they changed their eating habits for both religious purposes and as a method of weight loss/control. Overall, religious participants who indicated changing their eating habits for religious purposes experienced greater disordered eating and appearance-related pressures than theists who reported no change in their diet and non-religious respondents. Further, there was a significant interaction between gender and religiosity across the disordered eating variables. Results indicated that, compared to males who were not religious, those who were religious had higher scores on scales measuring disordered eating. Religious and non-religious women scored similarly on scales measuring other aspects of disordered eating (including Purging, Restricting, and Binge Eating). Further, compared to non-religious men, religious men, reported greater pressure from their family and peers; there was no difference in women.

Conclusions
Future research should further explore gender differences across types and specific aspects of religiosity such as motivation to practice.
High yield engineered nanovesicles from ADSC with enriched miR-21-5p promote angiogenesis in adipose tissue regeneration
Authors: Sun Di , Mou Shan , Chen Lifeng , Yang Jie , Wang Rongrong , Zhong Aimei , Wang Wei , Tong Jing , Wang Zhenxing , Sun Jiaming 
Published: December 2022

Abstract

Background
Mesenchymal stem cell-derived extracellular vesicles (MSC-EVs) have been found to have a great potential for soft tissue repair due to various biological functions, including pro-angiogenesis and low immunogenicity. However, the low yield and heterogeneity of MSC-EVs limited their clinical transformation. This study was designed to develop a novel adipose-derived stem cell engineered nanovesicles (ADSC-NVs) with high production and explore its pro-angiogenetic effect and application in adipose tissue regeneration.

Methods
Adipose-derived stem cell-derived extracellular vesicles (ADSC-EVs) were isolated from an EVs-free culture medium for human ADSCs (hADSCs). ADSC-NVs were prepared by sequentially extruding ADSCs followed by iodixanol density gradient ultracentrifugation and were compared with ADSC-EVs in morphology, size distribution, protein contents and yield. The pro-angiogenetic effect of ADSC-NVs in different doses (0, 5, 20 and 80 μg/mL) in vitro was determined using transwell assay, tube formation assay, western blot and qRT-PCR. In vivo, BALB/c nude mice were administered injection of a mixture of fat granules and different dose of ADSC-NVs and grafts were harvested at 12 weeks post-transplantation for further analysis. By analyzing the weight and volume of grafts and histological evaluation, we investigated the effect of ADSC-NVs in vessel formation and adipose tissue regeneration.

Results

Our results showed yield of purified ADSC-NVs was approximately 20 times more than that of ADSC-EVs secreted by the same number of ADSCs. In vitro, both ADSC-NVs and ADSC-EVs exhibited a dose-dependent pro-angiogenetic effect, despite their distinct miRNA profiles. These effects of ADSC-NVs may be mediated by enriched miR-21-5p via PTEN inhibition and PI3K/p-Akt signaling activation. Furthermore, after a mixed injection of ADSC-NVs, vessel formation and adipose regeneration were observed in vivo
in
fat implants.

Conclusions
Our study developed a potent alternative of ADSC-EVs. ADSC-NVs have a high pro-angiogenesis potential and can be used as cell-free therapeutic biomaterials in soft tissue regeneration.
The relationship between perinatal circadian rhythm and postnatal depression: an overview, hypothesis, and recommendations for practice
Authors: Hall Katherine , Patel Ritaben , Evans Jonathan , Greenwood Rosemary , Hicks Jane 
Published: December 2022

AbstractPostnatal depression (PND) is an important public health problem with far-reaching consequences for mothers, families, and society. Current treatment approaches tend to focus on the depressive symptoms of the mother. We propose the need for a shift in the conceptualisation of PND and its management, by focusing on circadian rhythm as an early manifestation of mother-infant synchrony. We have reviewed the relevant interdisciplinary literature to formulate a hypothesis and suggest recommendations for practice. We hypothesise that, after a mother’s circadian rhythm becomes ‘desynchronised’ immediately following birth, persistence of this disruption is implicated in the development of PND. This has important implications for novel treatment strategies in the critical and vulnerable postnatal period, for example the use of outdoor-based interventions and light.
Comparison of para-vascular supraclavicular brachial plexus block and costo-clavicular approach of infraclavicular brachial plexus block in providing surgical anesthesia for below elbow surgery: a randomized, single blind study
Authors: Waindeskar Vaishali , Raj Charan , Jain Anuj , Trivedi Saurabh 
Published: December 2022

Abstract
Background
With better precision of the brachial plexus block (BPB) under real-time ultrasound guidance, supraclavicular BPB (SC-BPB) and infraclavicular BPB (IC-BPB) are being used interchangeably for upper limb surgeries. However, the number of anesthesiologists practicing SC-BPB is much more than those practicing IC-BPB.
Many studies have compared SC-BPB and IC-BPB, but a study comparing the para-vascular approach of SC-BPB and costo-clavicular approach of IC-BPB is missing. This prospective study compared the costo-clavicular approach of IC-BPB with the para-vascular approach of SC-BPB. A total of 80 patients (40 in each group), aged 18–65 years, belonging to ASA class I and II and undergoing hand, wrist and forearm surgery were randomly allocated to group S (receiving SC-BPB) and group I (receiving IC-BPB). The two groups were compared with respect to the block success rate, block performance time, time taken to achieve surgical anesthesia, efficacy, and safety in providing surgical anesthesia for below elbow upper limb surgeries.

Results
Block success was significantly higher in the IC-BPB (100%) vs SC-BPB (92.5%), P value 0.03. Scan time was significantly more in the SC-BPB, P value 0.001. The block performance time was comparable; time to achieve surgical anesthesia was significantly longer in the IC-BPB, P value 0.001. Time for first rescue analgesia was longer in the IC-BPB, P value 0. 001. The number of patients requiring intraoperative sedation was comparable, P value 0.99.

Conclusions
IC-BPB has greater success rate in providing surgical anesthesia in below elbow surgeries and provides longer postoperative analgesia.
Prevalence of familial hypercholesterolemia in patients with confirmed premature coronary artery disease in Ranchi, Jharkhand
Authors: Kumar Prakash , Prasad Shashi Ranjan , Anand Anushil , Kumar Rajneesh , Ghosh Sajalendu 
Published: December 2022

Abstract
Background
Familial hypercholesterolemia (FH) is an under-diagnosed autosomal co-dominant genetic disorder characterized by very high plasma levels of low-density lipoprotein cholesterol (LDL-C), premature coronary artery disease (CAD) with arcus cornealis, and xanthomas. Among patients with CAD, the frequency of FH is significantly higher than that of the general population, but little data are available in India in this regard. This study aimed to assess the prevalence of FH in patients with premature coronary artery disease for the first time in the Jharkhand population.

Results
The study was conducted on 200 premature CAD patients at RIMS hospital, Ranchi, from January 2020 to June 2021 with CAG-confirmed acute coronary syndrome. The study, without taking the aid of genetic profiling of the patients and using the Dutch Lipid Clinic Network Criteria, revealed quite a high (23.5%) prevalence of potential FH in patients with premature CAD apart from the conventional risk factors. Mean LDL-C levels among patients with definite, probable, possible, and no FH were recorded as 250.39, 184.32, 136.11, and 108.09 mg/dl, respectively. Arcus cornealis was seen in 55.31% of patients with potential FH, 90% in definite FH, and 44.40% with probable FH. Patients with potential FH were more likely to be younger (age < 40 years) males, having a history of CAD and a family history of premature CAD as compared to patients without FH.

Conclusions
There was no previous report of large studies on FH or its epidemiology and its natural history from India. The present study is the first one to show a high prevalence of potential FH in premature CAD (about 23.5%). This preliminary study revealed that the prevalence of FH in patients with premature CAD who came to the tertiary care hospital of Ranchi, Jharkhand, was high, apart from the conventional risk factors.
Surgical retrieval and successful bronchial repair for impacted foreign body: a case report
Authors: Jhalani Ishan , Darbari Anshuman , Mishra Mayank , Kumar Pradeep 
Published: December 2022

AbstractIn the current era, surgical intervention such as bronchotomy should be the last resort, only to be chosen for a chronic, symptomatic, and impacted foreign body that is not retrievable bronchoscopically. This case tells us that this unusual approach is still required to remove the neglected and impacted foreign body in the right bronchus, which is not retrievable by the bronchoscope.
Anemia before in-hospital cardiac arrest and survival from cardio-pulmonary resuscitation—a retrospective cohort study
Authors: Shor Lior , Helviz Yigal , Einav Sharon 
Published: December 2022

Abstract

Background
Multiple patient-related variables have been associated with reduced rates of survival to hospital discharge (SHD) after in-hospital cardiac arrest (IHCA). As opposed to most of these, anemia may be reversible. This retrospective single-center study aims to examine the relationship between prearrest hemoglobin levels, comorbidities, and survival after cardiopulmonary resuscitation (CPR) among patients with non-traumatic IHCA. Patients were classified as anemic (hemoglobin < 10 g/dL) or non-anemic (hemoglobin ≥ 10 g/dL) based on their lowest hemoglobin measurement in the 48 h preceding the arrest. The primary outcome was SHD. The secondary outcome was return of spontaneous circulation (ROSC).

Results
Of 1515 CPR reports screened, 773 patients were included. Half of the patients (50.5%, 390) were classified as anemic. Anemic patients had higher Charlson Comorbidity Indices (CCIs), less cardiac causes, and more metabolic causes for the arrest. An inverse association was found between CCI and lowest hemoglobin. Overall, 9.1% (70 patients) achieved SHD and 49.5% (383) achieved ROSC. Similar rates of SHD (7.3 vs. 10.7%, p = 0.118) and ROSC (49.5 vs. 51.0%, p = 0.688) were observed in anemic and non-anemic patients. These findings remained consistent after adjustment for comorbidities, in sensitivity analyses on the independent variable (i.e., hemoglobin) and on potential confounders and in subgroups based on sex or blood transfusion in the 72 h preceding the arrest.

Conclusions
Prearrest hemoglobin levels lower than 10 g/dL were not associated with lower rates of SHD or ROSC in IHCA patients after controlling for comorbidities. Further studies are required to confirm our findings and to establish whether post-arrest hemoglobin levels reflect the severity of the inflammatory post-resuscitation processes.
Inhibition of Oocyte Maturation by Follicular Extracellular Vesicles of Nonhyperandrogenic PCOS Patients Requiring IVF
Authors: Liu Chang , Wang Meng , Yao Haixia , Cui Mengge , Gong Xueqi , Wang Lan , Sui Cong , Zhang Hanwang 
Published: December 2022

Abstract

Context
Polycystic ovary syndrome (PCOS) is one of the most common diseases that contribute to subfertility. Recent evidence showed that oocytes of women with PCOS matured in vitro away from the follicular fluid presented better potentials, whereas the reason remained unclear.

Objective
This work aimed to investigate whether follicular extracellular vesicles (EVs) of PCOS patients interfere with the quality of oocytes.

Methods
Follicular EVs of women with PCOS (PCOS-EVs) and control women (CTRL-EVs) were isolated and determined using Western blotting, nanoparticle tracking analysis, and transmission electron microscopy. The 2 types of EVs were co-cultured with murine germinal vesicle oocytes, respectively. Fluorescence-labeled EVs were used to visualize internalization by oocytes. After co-culture, oocyte maturation rates were calculated. Mitochondria distribution and reactive oxygen species (ROS) level were detected in the different groups. Spindle morphology was evaluated using immunofluorescence. Moreover, the expression of catalase (CAT), glutathione synthetase (GSS), and superoxide dismutase (SOD) was determined in the oocytes.

Results
Both PCOS-EVs and CTRL-EVs are bilayered vesicles, approximately 100 to 150 nm in size, and enriched in EV-associating protein markers. EVs were internalized by oocytes within 1 hour. Oocyte maturation rate decreased significantly in the PCOS-EV group compared with the CTRL-EV group, whereas the abnormal mitochondria distribution rate and abnormal spindle rate were significantly increased in the PCOS-EV group. Moreover, PCOS-EVs increased the ROS level and the expression of CAT, GSS, and SOD in the oocytes.

Conclusion
PCOS-EVs interfered with oocyte mitochondria and spindles and inhibited oocyte maturation. Moreover, oxidative stress induced by PCOS-EVs might be a potential cause.
Strikes, Stoppages, Occupations
Authors: Belausteguigoitia Marisa , Borzacchiello Emanuela , Lozano RÍan , Brostoff Alex 
Published: December 2022

Abstract
After the repression of the student movement in 1968, it was feminists who collectively took over public spaces for the first time in the 1970s. In recent years, two of the most representative occupations have taken place at the Angel of Independence in Mexico City and the Department of Philosophy and Literature at the Universidad Nacional Autónoma de México (UNAM). Over the past fifty years, feminist political strategies have proliferated, exerting a significant, direct impact on the visual regime and the disappropriation of cultural patrimony. Drawing on the voices of different generations of feminists, this article explores the political meanings that striking, work stoppage, and occupation have acquired, and some of the visual and narrative political strategies (including strikethroughs, graffiti, and mural-making) that serve them.
BOREALIS: an R/Bioconductor package to detect outlier methylation from bisulfite sequencing data
Authors: Oliver Gavin R. , Jenkinson W. Garrett , Olson Rory J. , Schultz-Rogers Laura E. , Klee Eric W. 
Published: December 2022

Background: Rare genetic disease studies have benefited from the era of high throughput sequencing. DNA sequencing results in genetic diagnosis of 18-40% of previously unsolved cases, while the incorporation of RNA-Seq analysis has more recently been shown to generate significant numbers of previously unattainable diagnoses. While DNA methylation remains less explored, multiple inborn diseases resulting from disorders of genomic imprinting are well characterized and a growing body of literature suggests the causative or correlative role of aberrant methylation in diverse rare inherited conditions. Complex pictures of methylation patterning are also emerging, including the association of regional, multiple specific-site or even single-site methylation, with disease. The systematic application of genomic-wide methylation-based sequencing for undiagnosed cases of rare diseases is a logical progression from current testing paradigms. Similar to the rationale previously exploited in RNA-based rare disease studies, we can assume that disease-associated or causative methylation aberrations in an individual will demonstrate significant differences from other individuals with unrelated phenotypes. Thus, aberrantly methylated sites will be outliers from a heterogeneous cohort of individuals. Methods: Based on this rationale, we present BOREALIS: Bisulfite-seq OutlieR MEthylation At SingLeSIte ReSolution. BOREALIS uses a beta binomial model to identify outlier methylation at single CpG site resolution from bisulfite sequencing data. Results: Utilizing power analyses, we demonstrate that BOREALIS can identify outlier CpG methylation within a cohort of samples. Furthermore, we show that BOREALIS is tolerant to the inclusion of multiple identical outliers with sufficient cohort size and sequencing depth. Conclusions: The method demonstrates improved performance versus standard statistical testing and is suited for single or multi-site downstream analysis.