bluuebunny/crossref_metadata_2025_split huggingface dataset:
Circadian and chemotherapy-related changes in urinary modified nucleosides excretion in patients with metastatic colorectal cancer
Authors: Dulong S. , Huang Q. , Innominato P. F. , Karaboue A. , Bouchahda M. , Pruvost A. , Théodoro F. , Agrofoglio L. A. , Adam R. , Finkenstädt B. , Lévi F. 
Published: December 2021

AbstractUrinary levels of modified nucleosides reflect nucleic acids turnover and can serve as non-invasive biomarkers for monitoring tumour circadian dynamics, and treatment responses in patients with metastatic colorectal cancer. In 39 patients, median overnight urinary excretion of LC-HRMS determinations of pseudouridine, was ~ tenfold as large as those of 1-methylguanosine, 1-methyladenosine, or 4-acetylcytidine, and ~ 100-fold as large as those of adenosine and cytidine. An increase in any nucleoside excretion after chemotherapy anticipated plasma carcinoembryonic antigen progression 1–2 months later and was associated with poor survival. Ten fractionated urines were collected over 2-days in 29 patients. The median value of the rhythm-adjusted mean of urinary nucleoside excretion varied from 64.3 for pseudouridine down to 0.61 for cytidine. The rhythm amplitudes relative to the 24-h mean of 6 nucleoside excretions were associated with rest duration, supporting a tight link between nucleosides turnover and the rest-activity rhythm. Moreover, the amplitude of the 1-methylguanosine rhythm was correlated with the rest-activity dichotomy index, a significant predictor of survival outcome in prior studies. In conclusion, urinary excretion dynamics of modified nucleosides appeared useful for the characterization of the circadian control of cellular proliferation and for tracking early responses to treatments in colorectal cancer patients.
Training a deep learning model for single-cell segmentation without manual annotation
Authors: Din Nizam Ud , Yu Ji 
Published: December 2021

AbstractAdvances in the artificial neural network have made machine learning techniques increasingly more important in image analysis tasks. Recently, convolutional neural networks (CNN) have been applied to the problem of cell segmentation from microscopy images. However, previous methods used a supervised training paradigm in order to create an accurate segmentation model. This strategy requires a large amount of manually labeled cellular images, in which accurate segmentations at pixel level were produced by human operators. Generating training data is expensive and a major hindrance in the wider adoption of machine learning based methods for cell segmentation. Here we present an alternative strategy that trains CNNs without any human-labeled data. We show that our method is able to produce accurate segmentation models, and is applicable to both fluorescence and bright-field images, and requires little to no prior knowledge of the signal characteristics.
Subnetwork representation learning for discovering network biomarkers in predicting lymph node metastasis in early oral cancer
Authors: Kim Minsu , Lee Sangseon , Lim Sangsoo , Lee Doh Young , Kim Sun 
Published: December 2021

AbstractCervical lymph node metastasis is the leading cause of poor prognosis in oral tongue squamous cell carcinoma and also occurs in the early stages. The current clinical diagnosis depends on a physical examination that is not enough to determine whether micrometastasis remains. The transcriptome profiling technique has shown great potential for predicting micrometastasis by capturing the dynamic activation state of genes. However, there are several technical challenges in using transcriptome data to model patient conditions: (1) An Insufficient number of samples compared to the number of genes, (2) Complex dependence between genes that govern the cancer phenotype, and (3) Heterogeneity between patients between cohorts that differ geographically and racially. We developed a computational framework to learn the subnetwork representation of the transcriptome to discover network biomarkers and determine the potential of metastasis in early oral tongue squamous cell carcinoma. Our method achieved high accuracy in predicting the potential of metastasis in two geographically and racially different groups of patients. The robustness of the model and the reproducibility of the discovered network biomarkers show great potential as a tool to diagnose lymph node metastasis in early oral cancer.
Evaluation of anticancer activity in vitro of a stable copper(I) complex with phosphine-peptide conjugate
Authors: Komarnicka Urszula K. , Pucelik Barbara , Wojtala Daria , Lesiów Monika K. , Stochel Grażyna , Kyzioł Agnieszka 
Published: December 2021

Abstract[CuI(2,9-dimethyl-1,10-phenanthroline)P(p-OCH3-Ph)2CH2SarcosineGlycine] (1-MPSG), highly stable in physiological media phosphino copper(I) complex—is proposed herein as a viable alternative to anticancer platinum-based drugs. It is noteworthy that, 1-MPSG significantly and selectively reduced cell viability in a 3D spheroidal model of human lung adenocarcinoma (A549), in comparison with non-cancerous HaCaT cells. Confocal microscopy and an ICP-MS analysis showed that 1-MPSG effectively accumulates inside A549 cells with colocalization in mitochondria and nuclei. A precise cytometric analysis revealed a predominance of apoptosis over the other types of cell death. In the case of HaCaT cells, the overall cytotoxicity was significantly lower, indicating the selective activity of 1-MPSG towards cancer cells. Apoptosis also manifested itself in a decrease in mitochondrial membrane potential along with the activation of caspases-3/9. Moreover, the caspase inhibitor (Z-VAD-FMK) pretreatment led to decreased level of apoptosis (more pronouncedly in A549 cells than in non-cancerous HaCaT cells) and further validated the caspases dependence in 1-MPSG-induced apoptosis. Furthermore, the 1-MPSG complex presumably induces the changes in the cell cycle leading to G2/M phase arrest in a dose-dependent manner. It was also observed that the 1-MPSG mediated intracellular ROS alterations in A549 and HaCaT cells. These results, proved by fluorescence spectroscopy, and flow cytometry, suggest that investigated Cu(I) compound may trigger apoptosis also through ROS generation.
Competitive endogenous RNA network and pathway-based analysis of LncRNA single-nucleotide polymorphism in myasthenia gravis
Authors: Wang Tianfeng , Xu Si , Zhang Huixue , Lu Xiaoyu , Li Shuang , Liu Li , Kong Xiaotong , Gao Hongyu , Wang Xu , Ning Shangwei , Wang Jianjian , Wang Lihua 
Published: December 2021

AbstractMyasthenia gravis (MG) is a complex neurological autoimmune disease with a pathogenetic mechanism that has yet to be elucidated. Emerging evidence has revealed that genes, non-coding RNAs and genetic variants play significant roles in the pathogenesis of MG. However, the molecular mechanisms of single nucleotide polymorphisms (SNPs) located on lncRNAs could disturb lncRNA-mediated ceRNA regulatory functions still unclear in MG. In this study, we collated 276 experimentally confirmed MG risk genes and 192 MG risk miRNAs. We then constructed a lncRNA-mediated ceRNA network for MG based on multi-step computational strategies. Next, we systematically integrated risk pathways and identified candidate SNPs in lncRNAs for MG based on data acquired from public databases. In addition, we constructed a pathway-based lncRNA-SNP mediated network (LSPN) that contained 128 lncRNAs targeting 8 MG risk pathways. By analyzing network, we propose a latent mechanism for how the “lncRNA-SNP-mRNA-pathway” axis affects the pathogenesis of MG. Moreover, 25 lncRNAs and 51 SNPs on lncRNAs were extracted from the “lncRNA-SNP-mRNA-pathway” axis. Finally, functional analyses demonstrated lncRNA-SNPs mediated ceRNA regulation pairs associated with MG participated in the MAPK signaling pathway. In summary, we constructed MG-specific lncRNA-SNPs mediated ceRNA regulatory networks based on pathway in the present study, which was helpful to elucidate the roles of lncRNA-SNPs in the pathogenesis of MG and provide novel insights into mechanism of lncRNA-SNPs as potential genetic risk biomarkers of MG.
Citric acid/β-alanine carbon dots as a novel tool for delivery of plasmid DNA into E. coli cells
Authors: Pandey Anju , Devkota Asmita , Sigdel Anil , Yadegari Zeinab , Dumenyo Korsi , Taheri Ali 
Published: December 2021

AbstractSuccessful delivery of plasmid DNA into the microbial cells is fundamental in recombinant DNA technology. Natural bacterial transformation is limited to only certain species due in part to the repulsive forces between negatively charged DNA and bacterial membranes. Most common method of DNA delivery into bacteria is artificial transformation through heat shock and electroporation. These methods require sophisticated instruments and tedious steps in preparation of competent cells. Transformation by conjugation is also not applicable to all plasmids. Nanoparticles have been used successfully in therapeutics for drug delivery into animal cells. They are starting to gain popularity in plant sciences as novel DNA nano carriers. Despite their promise as tool for DNA delivery, their use in microbial cell transformation has not been reported yet. Here we report the synthesis of carbon dots (CDs) from citric acid and β-alanine and their use in DNA delivery into E. coli cells. CDs were fabricated using microwave assisted synthesis. Plasmids carrying RFP reporter and ampicillin resistance genes were transferred to bacterial cells and further confirmed using polymerase chain reaction. Our findings indicate that CDs can be used successfully for delivery of foreign DNA of up to 10 kb into E. coli. We have demonstrated the use of β-alanine/citric acid carbon dots as nanocarriers of DNA into E. coli cells and identified their limitation in terms of the size of plasmid DNA they could carry. Use of these carbon dots is a novel method in foreign DNA delivery into bacterial cells and have a potential for the transformation of resistant organism for which there is still no reliable DNA delivery systems.
A comprehensive non-uniformity correction method for EMCCD
Authors: Qiao Li , Wang Mingfu , Jin Zheng , Mao Danbo 
Published: December 2021

AbstractThe non-uniformity of image directly affects the application of EMCCD in various disciplines. The proposed method can significantly improve the uniformity of EMCCD output image. The correction algorithm of "reverse split and forward recovery" is determined through analyzing the imaging model of EMCCD, and the comprehensive non-uniformity correction function model is established. The 8-tap EMCCD chip CCD220 of British e2v company is used for experimental verification. The results show that after the comprehensive correction the consistencies of the light response characteristic curve and the multiplication gain curve of each channel in EMCCD are obviously improved, and also the photo response non-uniformity (PRNU) of the output image is substantially reduced from 24.5 to 4.1%, which prove the effectiveness of the proposed method.
Design and synthesis of Fe3O4@SiO2@KIT-6@DTZ-Pd0 as a new and efficient mesoporous magnetic catalyst in carbon–carbon cross-coupling reactions
Authors: Moradi Zahra , Ghorbani-Choghamarani Arash 
Published: December 2021

AbstractIn this paper, a new type of mesoporous material based on KIT-6 has been introduced. In this aim, magnetic Fe3O4nanoparticles and mesoporous silica KIT-6 have been combined to obtain mesoporous MNPs. The prepared magnetic mesoporous catalyst has been applied in different carbon–carbon cross-coupling reactions including Mizoroki–Heck, Suzuki–Miyaura, and Stille reactions. This magnetic mesoporous compound is characterized by various techniques including FT-IR, BET, VSM, SEM, XRD, and TGA.
A convolutional deep learning model for improving mammographic breast-microcalcification diagnosis
Authors: Kang Daesung , Gweon Hye Mi , Eun Na Lae , Youk Ji Hyun , Kim Jeong-Ah , Son Eun Ju 
Published: December 2021

AbstractThis study aimed to assess the diagnostic performance of deep convolutional neural networks (DCNNs) in classifying breast microcalcification in screening mammograms. To this end, 1579 mammographic images were collected retrospectively from patients exhibiting suspicious microcalcification in screening mammograms between July 2007 and December 2019. Five pre-trained DCNN models and an ensemble model were used to classify the microcalcifications as either malignant or benign. Approximately one million images from the ImageNet database had been used to train the five DCNN models. Herein, 1121 mammographic images were used for individual model fine-tuning, 198 for validation, and 260 for testing. Gradient-weighted class activation mapping (Grad-CAM) was used to confirm the validity of the DCNN models in highlighting the microcalcification regions most critical for determining the final class. The ensemble model yielded the best AUC (0.856). The DenseNet-201 model achieved the best sensitivity (82.47%) and negative predictive value (NPV; 86.92%). The ResNet-101 model yielded the best accuracy (81.54%), specificity (91.41%), and positive predictive value (PPV; 81.82%). The high PPV and specificity achieved by the ResNet-101 model, in particular, demonstrated the model effectiveness in microcalcification diagnosis, which, in turn, may considerably help reduce unnecessary biopsies.
Inhalation of dimethyl fumarate-encapsulated solid lipid nanoparticles attenuate clinical signs of experimental autoimmune encephalomyelitis and pulmonary inflammatory dysfunction in mice
Authors: Pinto Bárbara Fernandes , Ribeiro Lorena Natasha Brito , da Silva Gisela Bevilacqua Rolfsen Ferreira , Freitas Camila Simões , Kraemer Lucas , Oliveira Fabrício Marcus Silva , Clímaco Marianna Carvalho , Mourão Flávio Afonso Gonçalves , Santos Gabryella Soares Pinheiro dos , Béla Samantha Ribeiro , Gurgel Isabella Luísa da Silva , Leite Fábio de Lima , de Oliveira Anselmo Gomes , Vilela Maura Regina Silva da Páscoa , Oliveira-Lima Onésia Cristina , Soriani Frederico Marianetti , Fujiwara Ricardo Toshio , Birbrair Alexander , Russo Remo Castro , Carvalho-Tavares Juliana 
Published: December 2021

Abstract
Rationale: The FDA-approved Dimethyl Fumarate (DMF) as an oral drug for Multiple Sclerosis (MS) treatment based on its immunomodulatory activities. However, it also caused severe adverse effects mainly related to the gastrointestinal system. Objective: Investigated the potential effects of solid lipid nanoparticles (SLNs) containing DMF, administered by inhalation on the clinical signs, central nervous system (CNS) inflammatory response, and lung function changes in mice with experimental autoimmune encephalomyelitis (EAE). Materials and methods: EAE was induced using MOG35–55 peptide in female C57BL/6J mice and the mice were treated via inhalation with DMF-encapsulated SLN (CTRL/SLN/DMF and EAE/SLN/DMF), empty SLN (CTRL/SLN and EAE/SLN), or saline solution (CTRL/saline and EAE/saline), every 72 h during 21 days. Results: After 21 days post-induction, EAE mice treated with DMF-loaded SLN, when compared with EAE/saline and EAE/SLN, showed decreased clinical score and weight loss, reduction in brain and spinal cord injury and inflammation, also related to the increased influx of Foxp3+ cells into the spinal cord and lung tissues. Moreover, our data revealed that EAE mice showed signs of respiratory disease, marked by increased vascular permeability, leukocyte influx, production of TNF-α and IL-17, perivascular and peribronchial inflammation, with pulmonary mechanical dysfunction associated with loss of respiratory volumes and elasticity, which DMF-encapsulated reverted in SLN nebulization. Conclusion: Our study suggests that inhalation of DMF-encapsulated SLN is an effective therapeutic protocol that reduces not only the CNS inflammatory process and disability progression, characteristic of EAE disease, but also protects mice from lung inflammation and pulmonary dysfunction.
Augmentative and Alternative Communication Telepractice During the COVID-19 Pandemic: A National Survey of Speech-Language Pathologists
Authors: Biggs Elizabeth E. , Therrien Michelle C. S. , Douglas Sarah N. , Snodgrass Melinda R. 
Published: December 2021

Purpose:The novel coronavirus (COVID-19) pandemic has led to sudden, widespread use of telepractice, including providing services to children who use aided augmentative and alternative communication (AAC). This exploratory study examined speech-language pathologists' (SLPs) experiences using telepractice to provide services to children and youth aged 3–21 years who used aided AAC during the earlier months of the pandemic (May–June 2020).Method:Three hundred thirty-one SLPs responded to an online survey. Closed- and open-ended survey items were analyzed quantitatively and qualitatively and mixed at the point of interpretation to understand the experiences of SLPs related to the use of telepractice with children who use aided AAC, including how they perceived effectiveness.Results:Most SLPs were using telepractice to provide both direct and consultation/coaching services to children who used aided AAC. There was fairly wide variation in perceptions of effectiveness of both types of services, but SLPs were more likely to rate consultation/coaching services as being more effective than direct services. SLPs identified factors impacting effectiveness across five dimensions: broader factors, practice-based factors (i.e., technology, the type of services), the child, parents and family members, and professionals. School-based SLPs perceived telepractice as being less effective than non–school-based SLPs.Conclusions:The use of telepractice during the COVID-19 pandemic has unfolded quite differently for different SLPs and the children who use aided AAC that they serve. Although AAC telepractice offers promise for the future, particularly for partnering with families, further research is needed to know how to overcome challenges experienced by SLPs.Supplemental Material:https://doi.org/10.23641/asha.17139434
Parental and Practitioner Views of Telepractice for Pediatric Auditory Verbal Habilitation at a Time of Global Pandemic
Authors: Pollard Rachel , Hogan Sarah 
Published: December 2021

Purpose:
The aim of this study was to explore parents' and therapists' views of the benefits and challenges of telepractice for early intervention for children who are deaf or hard of hearing during the COVID-19 pandemic.

Method:
Surveys probed the views of (a) parents and (b) Listening and Spoken Language Specialist (LSLS) Certified Auditory Verbal Therapists (AVTs) in using telepractice to deliver auditory verbal (AV) sessions. The survey for parents covered technology, coaching, communication, learnings for the parent, learnings for the child, and parental preference. The survey for the therapists examined therapy style, technology, relationships with families, and coaching style. Using a convenience sample of 65 families and nine LSLS Certified AVTs, data were collected using Google Forms.

Results:
A response rate of 42% was achieved for the parents' survey. Families were overwhelmingly confident in the subjective effectiveness of AV sessions delivered by telepractice with modal ratings of 8 and 9 on a 10-point rating scale for telepractice sessions and in-person sessions, respectively. On average, however, parents rated in-person sessions at a significantly higher level. Eighty-five percent opted to continue with either AV delivered solely via telepractice or a blend of telepractice and in-person sessions.
Changes in therapists' style included (a) increased interactions with the parent rather than the child and (b) an improvement in coaching techniques. Eight of nine therapists (89%) felt that sessions delivered via telepractice were equally effective as or more effective than in-person sessions.

Discussion:
The necessary transfer of all AV sessions to telepractice from in-person sessions during the global pandemic of COVID-19 was enacted successfully for the majority of families. Both parents and therapists described benefits and challenges of telepractice for AV intervention. Going forward, the high proportion of families requested either a blended service delivery of telepractice and in-person sessions or therapy via telepractice alone, demonstrating the families' satisfaction with this approach.
When Your Ankle Becomes a Knee – Long-Term Functional Outcome
and Quality of Life with a Rotationplasty after Resection of Malignant Limb
Tumors
Authors: Gotta Jennifer , Bielack Stefan , Hecker-Nolting Stefanie , Sorg Benjamin , Kevric Matthias , Salzmann-Manrique Emilia , Klingebiel Thomas 
Published: December 2021

Abstract
Background Increasing numbers of patients surviving malignant bone tumors
around the knee joint have led to an increasing importance to investigate
long-term results. This study assessed the long-term results of rotationplasty
after resection of malignant bone tumors regarding functional outcome and
quality of life to allow better comparison with other treatment options in bone
cancer treatment.
Procedure 60 participants who underwent rotationplasty due to bone cancer
took part in this multicentric questionnaire-based study. The long-term
functional outcome was measured by the Musculoskeletal tumor society score
(MSTS) and the Tegner activity level scale. The health-related quality of life
(HRQL) was assessed by using the Short Form Health Survey (SF-36).
Results Patients treated with rotationplasty (median follow-up of 22 years,
range 10–47 years) regained a high level of activity (median MSTS score
of 24). Even a return to high level sports was possible (mean Tegner activity
level scale of 4). Duration of follow-up did not influence the functional
outcome. HRQL scores were comparable to the general German population. Concerns
of psychological problems due to the unusual appearance of the rotated foot have
not been confirmed.
Conclusion Rotationplasty can be a good alternative to endoprosthetic
replacement or amputation, either as primary surgery or as a salvage procedure.
Especially for growing children and very active patients rotationplasty should
be considered.
“Completely impartial opinion, okay?”
Authors: Bogaards Maarten 
Published: December 2021

Abstract
Sponsorships on YouTube – i.e., video creators on YouTube promoting a third-party product or service to their audience – have attracted considerable research interest recently in various disciplines. This multidisciplinary study analyzes it from the perspective of argumentation theory, specifically pragma-dialectics, which offers valuable new insights into the discursive tensions inherent to this type of promotion. These tensions arise between the creator’s relationship with their audience on the one hand, which is built upon ‘parasocial’ evaluations of authenticity and community, and the commercial third party brand on the other. The insights provided by the pragma-dialectic analysis are demonstrated by means of a case study examining a sponsorship segment by YouTuber PewDiePie, which shows that creators can employ specific types of presentational choices and audience adaptation strategically to undercut commitment to the sponsor while furthering the relationship with their viewers.