bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Effect of NPWT on Odontogenic Cervical Necrotizing Fasciitis
Authors: Wang Qian , Yang Xiaolan , Wei Zhiyi , Lin Tianlai , Wang Longfeng 
Published: September 2024

Objective:
To investigate the clinical efficacy of negative pressure wound therapy (NPWT) in the treatment of odontogenic cervical Necrotizing fasciitis (CNF).

Methods:
Sixteen cases of odontogenic cervical necrotizing fasciitis were randomly divided into observation group and control group after routine debridement and disinfection. The patients in the control group were treated with drainage tube and regular dressing changes, while those in the observation group were treated with NPWT. The therapeutic effects of the 2 groups were compared.

Results:
The frequency of operation, treatment length, and cost of treatment in the observation group were significantly less than those in the control group (P<0.05). During the treatment, the VAS (visual analog scale of pain) in the observation group was significantly lower than that in the control group (P<0.05). The levels of WBC, CRP, PCT, IL-6, and TNF-α in the observation group were lower than those in the control group (P<0.05). The levels of Il-10 and VEGF in the observation group were higher than those in the control group (P<0.05), the difference was statistically significant.

Conclusions:
The condition of odontogenic cervical necrotizing fasciitis progresses rapidly. Compared with conventional drainage and dressing change, NPWT can control infection in a short time, reduce operation frequency and treatment cost, and promote wound healing, shorten the treatment time, ease the pain of patients, improve the quality of life. The therapeutic scheme is safe, effective, and suitable for clinical application.
IDENTIFYING POTENTIAL KEY FERROPTOSIS-RELATED GENES AND THERAPEUTIC DRUGS IN SEPSIS-INDUCED ARDS BY BIOINFORMATICS AND EXPERIMENTAL VERIFICATION
Authors: Li Man , Ren Xiaojing , Lu Futai , Pang Shenyue , Ding Ling , Wang Lei , Xie Shuhua , Geng Licheng , Xu Jiangang , Yang Tao 
Published: September 2024

ABSTRACT

Background: Acute respiratory distress syndrome (ARDS) is a serious pathological process with high mortality. Ferroptosis is pivotal in sepsis, whose regulatory mechanisms in sepsis-induced ARDS remains unknown. We aimed to determine key ferroptosis-related genes in septic ARDS and investigate therapeutic traditional Chinese medicine. Method: Sepsis-induced ARDS dataset obtained from Gene Expression Omnibus was analyzed to identify ferroptosis-related differentially expressed genes. Enrichment analysis and protein-protein interaction network construction were performed to identify hub genes. Immune cells infiltration was analyzed and competitive endogenous RNA network was constructed. The diagnostic value of hub genes in septic ARDS was analyzed and the occurrence of ferroptosis and the expression of hub genes were detected. Traditional Chinese medicine targeting hub genes was predicted via SymMap database and was verified. Results: Sixteen ferroptosis-related differentially expressed genes were obtained, among which the top four genes (IL1B, TXN, MAPK3, HSPB1) were selected as hub genes, which may be potential diagnostic markers of septic ARDS. Immunoassay showed that sepsis-induced ARDS and hub genes were closely related to immune cells. The competitive endogenous RNA network showed 26 microRNAs and 38 long noncoding RNA. Ferroptosis occurred and the expressions of IL1B, MAPK3, and TXN were increased in septic ARDS mice and LPS-challenged human pulmonary alveolar epithelial cells. Sea buckthorn alleviated septic lung injury and affected hub genes expression. Conclusions: Ferroptosis-related genes of IL1B, MAPK3, and TXN serve as potential diagnostic genes for sepsis-induced ARDS. Sea buckthorn may be therapeutic medication for ARDS. This study provides a new direction for septic ARDS treatment.
Individual Factors in Young Female Athletes’ Bladder Health (the Y-FAB Study)
Authors: Bennis Stacey , Joyce Cara , Mueller Elizabeth R. , Fitzgerald Colleen M. 
Published: September 2024

Importance
Bladder health in high school and collegiate females is not well understood.

Objective
The objective of this study was to compare toileting behaviors, lower urinary tract symptoms (LUTSs), and fluid intake in female athletes and nonathletes.

Study Design
English-speaking nulliparous females aged 13–23 years were recruited. Participants completed the Toileting Behaviors: Women’s Elimination Behaviors Scale, Bristol Female LUTS Questionnaire, and Beverage Questionnaire. Statistical analysis included univariable analyses and multivariable comparisons of athletes to nonathletes adjusting for age and fluid intake.

Results
One hundred athletes and 98 nonathletes participated (mean age 20 ± 2, mean body mass index 23 ± 4). Athletes’ sports were predominantly high impact. Dysmenorrhea and anxiety were higher in nonathletes (P < 0.01) versus more stress fractures in athletes (P < 0.001). Problematic toileting behaviors were prevalent regardless of athletic status; nonathletes were more likely to hold urine until home and empty away from home without the urge (both P = 0.04). Lower urinary tract symptoms were prevalent regardless of athletic status, including frequency (34.2%), hesitancy (33.3%), urgency (32.8%), stress incontinence (15.3%), and urgency incontinence (11.8%). Athletes had significantly more stress incontinence and urgency and higher incontinence subscores on univariable analysis, although the difference was attenuated after multivariable adjustment. Athletes consumed lower total fluids (P = 0.03).

Conclusions
Problematic toileting behaviors and LUTSs were prevalent in high school and collegiate females, regardless of athletic status. Athletes had higher stress urinary incontinence and urgency and lower fluid intake. These findings support future work toward enhancing early bladder health interventions (screening, education, and LUTS prevention) among high school and collegiate females.
Epigenomic, transcriptomic and proteomic characterizations of reference samples
Authors: Nepal Chirag , Chen Wanqiu , Chen Zhong , Wrobel John A. , Xie Ling , Liao Wenjing , Xiao Chunlin , Farmer Adrew , Moos Malcolm , Jones Wendell , Chen Xian , Wang Charles 
Published: September 2024

AbstractA variety of newly developed next-generation sequencing technologies are making their way rapidly into the research and clinical applications, for which accuracy and cross-lab reproducibility are critical, and reference standards are much needed. Our previous multicenter studies under the SEQC-2 umbrella using a breast cancer cell line with paired B-cell line have produced a large amount of different genomic data including whole genome sequencing (Illumina, PacBio, Nanopore), HiC, and scRNA-seq with detailed analyses on somatic mutations, single-nucleotide variations (SNVs), and structural variations (SVs). However, there is still a lack of well-characterized reference materials which include epigenomic and proteomic data. Here we further performed ATAC-seq, Methyl-seq, RNA-seq, and proteomic analyses and provided a comprehensive catalog of the epigenomic landscape, which overlapped with the transcriptomes and proteomes for the two cell lines. We identified >7,700 peptide isoforms, where the majority (95%) of the genes had a single peptide isoform. Protein expression of the transcripts overlapping CGIs were much higher than the protein expression of the non-CGI transcripts in both cell lines. We further demonstrated the evidence that certain SNVs were incorporated into mutated peptides. We observed that open chromatin regions had low methylation which were largely regulated by CG density, where CG-rich regions had more accessible chromatin, low methylation, and higher gene and protein expression. The CG-poor regions had higher repressive epigenetic regulations (higher DNA methylation) and less open chromatin, resulting in a cell line specific methylation and gene expression patterns. Our studies provide well-defined reference materials consisting of two cell lines with genomic, epigenomic, transcriptomic, scRNA-seq and proteomic characterizations which can serve as standards for validating and benchmarking not only on various omics assays, but also on bioinformatics methods. It will be a valuable resource for both research and clinical communities.
Bimodal dendritic processing in basket cells drives distinct memory-related oscillations
Authors: Tzilivaki Alexandra , Larkum Matthew Evan , Schmitz Dietmar 
Published: September 2024

AbstractHippocampal oscillations regulate distinct memory stages and behavioral states, yet the mechanisms by which interneurons contribute to these rhythms remain elusive. Here, we establish a novel link between the bimodal nonlinear dendritic processing of PV+ fast-spiking basket cells (FSBCs) and hippocampal oscillations. Our model predicts that FSBCs can flexibly adjust their activity without changes in synaptic input quantity, leveraging their supralinear and sublinear dendritic branches to selectively shape network dynamics. Supralinear dendritic activation enhances high-frequency oscillations, while sublinear dendritic activation amplifies slow oscillatory power, dynamically modulating the excitation/inhibition (E/I) balance. These findings reveal a previously unrecognized role of FSBC dendritic integration in memory-related oscillatory dynamics, offering new insights into the cellular mechanisms governing hippocampal rhythm generation.Significance StatementHippocampal oscillations play a crucial role in memory processes, yet how interneurons dynamically regulate these rhythms remains unresolved. Our study reveals that fast-spiking basket cells (FSBCs) exploit bimodal nonlinear dendritic processing to selectively shape slow and fast oscillatory components, independently of synaptic input quantity. This energy-efficient mechanism allows FSBCs to fine-tune the excitation-inhibition balance, modulating network dynamics essential for learning and consolidation. By challenging the conventional view of interneuron function, our findings redefine how inhibitory circuits contribute to hippocampal rhythm generation, providing new insights into the cellular basis of memory-related oscillations.
U2AF1 S34Fenhances tumorigenic potential of lung cells by exhibiting synergy withKRASmutation and altering response to environmental stress
Authors: Liang Cindy E , Hrabeta-Robinson Eva , Behera Amit , Arevalo Carlos , Fetter Isobel J. , Soulette Cameron M. , Thornton Alexis M. , Sikandar Shaheen S. , Brooks Angela N. 
Published: September 2024

SUMMARYAlthoughU2AF1S34Fis a recurrent splicing factor mutation in lung adenocarcinoma (ADC),U2AF1S34Falone is insufficient for producing tumors in previous models. Because lung ADCs withU2AF1S34Ffrequently have co-occurringKRASmutations and smoking histories, we hypothesized that tumor-forming potential arises fromU2AF1S34Finteracting with oncogenicKRASand environmental stress. To elucidate the effect ofU2AF1S34Fco-occurring with a second mutation, we generated human bronchial epithelial cells (HBEC3kt) with co-occurringU2AF1S34FandKRASG12V. Transcriptome analysis revealed that co-occurringU2AF1S34FandKRASG12Vdifferentially impacts inflammatory, cell cycle, and KRAS pathways. Subsequent phenotyping found associated suppressed cytokine production, increased proliferation, anchorage-independent growth, and tumors in mouse xenografts. Interestingly, HBEC3kts harboring onlyU2AF1S34Fdisplay increased splicing in stress granule protein genes and viability in cigarette smoke concentrate. Our results suggest thatU2AF1S34Fmay potentiate transformation by granting precancerous cells survival advantage in environmental stress, permitting accumulation of additional mutations likeKRASG12V, which synergize withU2AF1S34Fto transform the cell.
First imported Cases of MPXV Clade Ib in Goma, Democratic Republic of the Congo: Implications for Global Surveillance and Transmission Dynamics
Authors: Mukadi-Bamuleka Daniel , Kinganda-Lusamaki Eddy , Mulopo-Mukanya Noella , Amuri-Aziza Adrienne , O’Toole Áine , Modadra-Madakpa Brigitte , Ndongala Guy Mutombo , Vakaniaki Emmanuel Hasivirwe , Merritt Sydney , Kacita Cris , Maboko Gaston Lubambo , Makangara-Cigolo Jean-Claude , Ngimba Michel , Lokilo Emmanuel , Pukuta-Simbu Elisabeth , Luakanda Gradi , Bodisa-Matamu Tavia , Kalimuli Zephanie Paluku , Akil-Bandali Prince , Kavira Sifa , Jansen Daan , Kamaliro Adèle Kavira , Muhindo-Milonde Emile , Mufungizi Jeriel , Hamisi Yves Birindwa , Kavunga Hugo , Tshiani Olivier , Nundu Sabin S. , Liesenborghs Laurens , Hoff Nicole A. , Nachega Jean , Shongo Robert , Ayouba Ahidjo , Pilarowski Genay , Mangolopa Alain Kakule , Ebondo Amos Kiuka , Low Nicola , Shaw Souradet Y. , Wilkinson Sam , Tessema Sofonias Kifle , Subissi Lorenzo , Delaporte Eric , Vercauteren Koen , Wawina-Bokalanga Tony , Rimoin Anne W , Peeters Martine , Loman Nicholas , Rambaut Andrew , Muyembe-Tamfum Jean-Jacques , Hensley Lisa E. , Kindrachuk Jason , Mbala-Kingebeni Placide , Ahuka-Mundeke Steve 
Published: September 2024

ABSTRACTThe ongoing national mpox outbreak in the Democratic Republic of the Congo has resulted in more >30,000 suspected cases in the country from January 2023 to August 2024. While these historic case totals have been driven by primarily by zoonosis, the emergence of Clade Ib monkeypox virus (MPXV), which is connected to more sustained human-to-human transmission, has been associated with increasing public health impacts in eastern DRC. First identified in South Kivu province, Clade Ib MPXV has been identified in multiple non-endemic East African countries for the first time. In DRC, there have been concerns over broader Clade Ib expansion in the country that could further complicate containment and mitigation responses. Here, we report the first introductions of Clade Ib into North Kivu province, including within internal displacement camps, with suspected close contact transmission that includes non-intimate contacts and children. These findings demonstrate that mpox case investigations and community messaging campaigns should include considerations for non-sexual contact-mediated transmission of Clade Ib that includes children <15 years.
Non-pharmacological interventions for psychotic symptoms in people with dementia: a Delphi consensus
Authors: Choi A , McDermid J , Mills K , Sweetnam A , Fossey J , Khan Z , Ballard C 
Published: September 2024

AbstractBackgroundPsychotic symptoms such as delusion and hallucinations are common in people with dementia. They are associated with various deleterious outcomes including reduced quality of life and increased caregiver burden. Pharmacological interventions to combat psychotic symptoms have shown limited efficacy and can be associated with significant adverse events. Non-pharmacological interventions are recommended as the first line option for treatment, however there is a paucity of evidence for specific non-pharmacological options to primarily target psychotic symptoms in people with dementia. Further work is needed to identify, adapt and develop possible non-pharmacological options to target psychotic symptoms in dementia.AimTo establish which non-pharmacological interventions could be used or adapted to treat psychotic symptoms and/or confer benefits in people with dementiaDesignModified Delphi consensus process. Two rounds of feedback were conducted and included a directed scoping review, based on the interventions recommended in the first round of the Delphi.ParticipantsAn expert panel consisted of 12 members with clinical and research expertise in managing psychotic symptoms in people with dementiaResultsThere were three top nominated treatment options: cognitive behavioural therapy (CBT), family intervention, and personalized activities/environmental/sensory interventions, without a clear priority between the 3 approaches.The WHELD/Brief Psychosocial Therapy programme focussing on personalized activities improves concurrent neuropsychiatric symptoms in people with dementia related psychosis. Preliminary studies also suggest that combining personalized activities with family training may improve the direct impact on psychosis. There are also opportunities to adapt CBT interventions for people with psychosis related to early or mild dementia.ConclusionsThere were clear recommendations for three non-pharmacological options that could be used or adapted to benefit people with psychosis in the context of dementia.
The preferential injury of outer renal medulla after ischemia-reperfusion relies on high oxidative metabolism
Authors: Arnoux Grégoire , Serre Justine , Verissimo Thomas , Tihy Matthieu , Placier Sandrine , Verney Charles , Sangla Frédéric , Paolucci Deborah , Fernandez Marylise , de Seigneux Sophie , Sgardello Sebastian , Naesens Maarten , Hadchouel Juliette , Feraille Éric , Khodo Stellor Nlandu , Galichon Pierre , Legouis David 
Published: September 2024

AbstractAcute kidney injury (AKI) is a prevalent and significant complication in critically ill patients, and its management remains a considerable challenge. The kidney is a highly metabolic organ, consuming and producing substantial amounts of ATP, mainly through mitochondrial oxidative phosphorylation. Recently, mitochondrial dysfunction has been identified as a key factor in the pathophysiology of AKI and the progression to chronic kidney disease. The kidney is a complex organ, comprising millions of structural and functional units. These nephrons are composed of different cell types dwelling within specific metabolic microenvironment. Whether the metabolic spatialization in the kidney has consequences on tubular injury distribution and severity remains unclear.In this study, we identified the high metabolic rate of the outer stripe of the outer medulla (OSOM) and its substrate preference flexibility, relying on both glycolysis and fatty acid oxidation (FAO) to fulfill its ATP demands. We demonstrated that the OSOM is susceptible to mitochondrial and FAO impairment induced by propofol, the most used sedative in intensive care settings, which exacerbates tubular injury during AKI. In the clinical setting, the cumulative dose of propofol is positively correlated with oxidative metabolism disruption and histological and function outcomes in renal allograft recipients. Finally, we found that the loop of Henle, the OSOM major constituent, was the most injured segment during AKI in patients.This study shows how renal metabolic spatialization impacts tubular injury severity. We identified the OSOM as the most metabolically active and the most injured region of the kidney both in humans and mice. We demonstrated that propofol is a potent inhibitor of renal mitochondrial function and FAO exacerbating tubular injury in the OSOM upon IRI.Translational StatementAerobic metabolism is basally enhanced in the renal OSOM, including the S3 proximal tubule, the thick ascending limb of the loop of Henle and Distal Convoluted TubulePT cells as well as TAL cells are significantly targeted by injury in human AKI.Propofol impairs renal mitochondrial function worsening tubular injury during ischemia reperfusion.
Ongoing evolution of Middle East Respiratory Syndrome Coronavirus, Kingdom of Saudi Arabia, 2023-2024
Authors: Hassan Ahmed M. , Mühlemann Barbara , Al-Subhi Tagreed L. , Rodon Jordi , El-Kafrawy Sherif A. , Memish Ziad , Melchert Julia , Bleicker Tobias , Mauno Tiina , Perlman Stanley , Zumla Alimuddin , Jones Terry C. , Müller Marcel A. , Corman Victor M. , Drosten Christian , Azhar Esam I. 
Published: September 2024

AbstractMiddle East respiratory syndrome coronavirus (MERS-CoV) circulates in dromedary camels in the Arabian Peninsula and occasionally causes spillover infections in humans. Due to lack of sampling during the SARS-CoV-2 pandemic, current MERS-CoV diversity is poorly understood. Of 558 dromedary camel nasal swabs from Saudi Arabia, sampled November 2023 to January 2024, 39% were positive for MERS-CoV RNA by RT-PCR. We generated 42 MERS-CoV and seven human 229E-related CoV by high-throughput sequencing. For both viruses, the sequences fell into monophyletic clades apical to the most recent available genomes. The MERS-CoV sequences were most similar to those from lineage B5. The new MERS-CoVs sequences harbor unique genetic features, including novel amino acid polymorphisms in the Spike protein. The new variants require further phenotypic characterization to understand their impact. Ongoing MERS-CoV spillovers into humans pose significant public health concerns, emphasizing the need for continued surveillance and phenotypic studies.
DiatOmicBase, a gene-centered platform to mine functional omics data across diatom genomes
Authors: Villar Emilie , Zweig Nathanaël , Vincens Pierre , Cruz de Carvalho Helena , Duchene Carole , Liu Shun , Monteil Raphael , Dorrell Richard G. , Fabris Michele , Vandepoele Klaas , Bowler Chris , Falciatore Angela 
Published: September 2024

AbstractDiatoms are prominent microalgae found in all aquatic environments. Over the last 20 years, thanks to the availability of genomic and genetic resources, diatom species such asPhaeodactylum tricornutumhave emerged as valuable experimental model systems for exploring topics ranging from evolution to cell biology, (eco)physiology and biotechnology. Since the first genome sequencing in 2008, numerous genome-enabled datasets have been generated, based on RNA-Seq and proteomics, epigenomes, and ecotype variant analysis. Unfortunately, these resources, generated by various laboratories, are often in disparate formats and challenging to access and analyze. Here we present DiatOmicBase, a genome portal gathering comprehensive omics resources fromP. tricornutumand two other diatoms to facilitate the exploration of dispersed public datasets and the design of new experiments based on the prior-art.DiatOmicBase provides gene annotations, transcriptomic profiles and a genome browser with ecotype variants, histone and methylation marks, transposable elements, non-coding RNAs, and read densities from RNA-Seq experiments. We developed a semi-automatically updated transcriptomic module to explore both publicly available RNA-Seq experiments and users’ private datasets. Using gene-level expression data, users can perform exploratory data analysis, differential expression, pathway analysis, biclustering, and co-expression network analysis. Users can create heatmaps to visualize precomputed comparisons for selected gene subsets. Automatic access to other bioinformatic resources and tools for diatom comparative and functional genomics is also provided. Focusing on the resources currently centralized forP. tricornutum, we showcase several examples of how DiatOmicBase strengthens molecular research on diatoms, making these organisms accessible to a broad research community.Significance statementIn recent years, diatoms have become the subject of increasing interest because of their ecological importance and their biotechnological potential for natural products such as pigments and polyunsaturated fatty acids. Here, we present an interactive web-based server that integrates public diatom ‘omics data (genomics, transcriptomics, epigenomics, proteomics, sequence variants) to connect individual diatom genes to broader-scale functional processes.