bluuebunny/crossref_metadata_2025_split huggingface dataset:
Metastasizing aneurysmal dermatofibroma initially diagnosed as angiosarcoma confirmed by CD63::PRKCD fusion gene detection with nanopore sequencing
Authors: Takeda Naoki , Makise Naohiro , Lin Jason , Kageyama Hajime , Oikawa Mariko , Sugiyama Takahiro , Kawana Hidetada , Araki Akinobu , Tuskanishi Toshinori , Kinoshita Hideyuki , Hagiwara Yoko , Kamoda Hiroto , Motoi Toru , Yonemoto Tsukasa , Kawazu Masahito , Itami Makiko 
Published: May 2024

AbstractDermatofibroma (DF) is a benign tumor that forms pedunculated lesions ranging in size from a few millimeters to 2 cm, usually affecting the extremities and trunks of young adults. Histopathologically, DF is characterized by the storiform proliferation of monomorphic fibroblast‐like spindle cells. In addition to neoplastic cells, secondary elements such as foamy histiocytes, Touton‐type giant cells, lymphoplasmacytes, and epidermal hyperplasia are characteristic histological features. Several histological variants, including atypical, cellular, aneurysmal, and lipidized variants, have been reported; cases with variant histologies are sometimes misdiagnosed as sarcomas. We present a case of metastasizing aneurysmal DF that was initially diagnosed as an angiosarcoma on biopsy. A 26‐year‐old woman was referred to our hospital with a gradually enlarging subcutaneous mass in her lower left leg. Positron emission tomography‐computed tomography revealed high fluorodeoxyglucose uptake not only in the tumor but also in the left inguinal region. On biopsy, ERG and CD31‐positive atypical spindle cells proliferated in slit‐like spaces with extravasation, leading to the diagnosis of angiosarcoma. Histology of the wide‐resection specimen was consistent with DF, and lymph node metastasis was also observed. Nanopore DNA sequencing detected CD63::PRKCD fusion and copy number gain, although CD63 was not included in the target region of adaptive sampling. This report highlights the importance of recognizing the unusual clinical, radiological, and pathological features of DF to avoid misdiagnosis, and the potential diagnostic utility of nanopore sequencer.
Robotic‐assisted laparoscopic radical prostatectomy for treatment of a newly identified lesion revealed no viable cells in the previously treated area with microwave focal therapy
Authors: Tsukuda Fumio , Shimizu Toshihiro , Hagiwara Kiichi , Kawano Yoshiyuki , Sakamoto Noboru , Itagaki Shingo , Horiguchi Yutaka , Koga Shoji , Ukimura Osamu 
Published: May 2024

IntroductionHistological outcome of the targeted focal therapy is in principle confirmed by targeted needle biopsy from the treated area in clinical trial. Herein, we report a rare case in which the MFT was followed by RARP.Case presentationA 68‐year‐old man with PSA 9.6 ng/mL and PI‐RADS 4 lesion in the right transition zone on multi‐parametric MRI underwent MR/ultrasound fusion‐guided targeted biopsy, which revealed grade‐group 1 cancer. Targeted focal therapy with microwave ablation was performed, resulting in disappearance of the PI‐RADS 4 lesion at post‐operative 4 months. However, PSA rose to 11.5 ng/mL, and a new PI‐RADS 4 lesion, was identified in the left peripheral zone. RARP was performed to reveal new grade‐group 3 cancer, and no viable cells in the previously treated area with MFT.ConclusionRARP was safely performed even after MFT and proved the pathological complete response of microwave ablation.
Functional and biochemical characterisation of remote homologues of type IV pili proteins PilN and PilO in Helicobacter pylori
Authors: Bonny Sharmin Q. , Zhou Xiaotian , Khan Mohammad F. , Rahman Mohammad M. , Xin Yue , Vankadari Naveen , Tikhomirova Alexandra , Homman‐Ludiye Jihane , Roujeinikova Anna 
Published: May 2024

AbstractHelicobacter pylori encodes homologues of PilM, PilN and PilO from bacteria with Type IV pili, where these proteins form a pilus alignment complex. Inactivation of pilO changes H. pylori motility in semi‐solid media, suggesting a link to the chemosensory pathways or flagellar motor. Here, we showed that mutation of the pilO or pilN gene in H. pylori strain SS1 reduced the mean linear swimming speed in liquid media, implicating PilO and PilN in the function, or regulation of, the flagellar motor. We also demonstrated that the soluble variants of H. pylori PilN and PilO share common biochemical properties with their Type IV pili counterparts which suggests their adapted function in the bacterial flagellar motor may be similar to that in the Type IV pili.
Characterization of an advanced bone graft material with a nanocrystalline hydroxycarbanoapatite surface and dual phase composition
Authors: Borden Mark D. , Shors Edwin Clayton , Walsh William R. , Lovric Vedran 
Published: May 2024

AbstractThe bone formation response of ceramic bone graft materials can be improved by modifying the material's surface and composition. A unique dual‐phase ceramic bone graft material with a nanocrystalline, hydroxycarbanoapatite (HCA) surface and a calcium carbonate core (TrelCor®—Biogennix, Irvine, CA) was characterized through a variety of analytical methods. Scanning electron microscopy (SEM) of the TrelCor surface (magnification 100–100,000X) clearly demonstrated a nanosized crystalline structure covering the entire surface. The surface morphology showed a hierarchical structure that included micron‐sized spherulites fully covered by plate‐like nanocrystals (<60 nm in thickness). Chemical and physical characterization of the material using X‐ray Diffraction (XRD), Fourier Transform Infrared Spectroscopy (FTIR), and Scanning Electron Microscopy Energy Dispersive X‐ray Spectroscopy (SEM–EDX) showed a surface composed of HCA. Analysis of fractured samples confirmed the dual‐phase composition with the presence of a calcium carbonate core and HCA surface. An in vitro bioactivity study was conducted to evaluate whether TrelCor would form a bioactive layer when immersed in simulated body fluid. This response was compared to a known bioactive material (45S5 bioactive glass ‐ Bioglass). Following 14‐days of immersion, surface and cross‐sectional analysis via SEM–EDX showed that the TrelCor material elicited a bioactive response with the formation of a bioactive layer that was qualitatively thicker than the layer that formed on Bioglass. An in vivo sheep muscle pouch model was also conducted to evaluate the ability of the material to stimulate an ectopic, cellular bone formation response. Results were compared against Bioglass and a first‐generation calcium phosphate ceramic that lacked a nanocrystalline surface. Histology and histomorphometric analysis (HMA) confirmed that the TrelCor nanocrystalline HCA surface stimulated a bone formation response in muscle (avg. 11% bone area) that was significantly greater than Bioglass (3%) and the smooth surface calcium phosphate ceramic (0%).
Medial meniscus extrusion is associated with meniscus tears in US and MRI: A case control study
Authors: Uusimaa Antti‐Pekka , Kemppainen Antti , Nevalainen Mika T. 
Published: May 2024

AbstractObjectivesTo study the medial meniscus extrusion (MME) in subjects with and without medial meniscal tears on magnetic resonance imaging (MRI), supine ultrasound (US), and weight‐bearing US.MethodsForty‐seven cases (mean age 43.7 years) with medial meniscus tears and 53 healthy controls (mean age 36.6 years) were assessed. Two experienced sonographers performed the US evaluations, and a fellowship‐trained musculoskeletal radiologist assessed the menisci on MRI. Independent and paired T‐tests and ICC were used for statistical analyses.ResultsOn supine US, the mean MME was 3.9 mm for the cases and 2.3 mm for the controls (p < 0.001). On weight‐bearing US, the values were 4.2 and 2.8 mm (p < 0.001), and on MRI 3.0 and 2.0 mm (p < 0.001), respectively. The mean difference between supine and weight‐bearing US extrusion was 0.38 mm for the cases and 0.49 mm for the controls (p = 0.291). Correlation between supine US and MRI MME measurements was good (ICC = 0.660, CIs [0.533–0.758]).ConclusionsMME can be assessed using US with good correlation to MRI. US‐observed extrusion was significantly increased in supine and standing positions for medial meniscus tears. The mean difference between examination positions was reduced with medial meniscus tears although this result was statistically insignificant.
Insights into modifiers effects in differential mobility spectrometry: A data science approach for metabolomics and peptidomics
Authors: Stepanovic Stepan , Ekmekciu Lysi , Alghanem Bandar , Hopfgartner Gérard 
Published: May 2024

AbstractUtilizing a data‐driven approach, this study investigates modifier effects on compensation voltage in differential mobility spectrometry–mass spectrometry (DMS‐MS) for metabolites and peptides. Our analysis uncovers specific factors causing signal suppression in small molecules and pinpoints both signal suppression mechanisms and the analytes involved. In peptides, machine learning models discern a relationship between molecular weight, topological polar surface area, peptide charge, and proton transfer‐induced signal suppression. The models exhibit robust performance, offering valuable insights for the application of DMS to metabolites and tryptic peptides analysis by DMS‐MS.
Determination of the effect of preoperative knee joint function on postoperative quality of life in patients with total knee arthroplasty
Authors: Kaya Cigdem , Seyman Cigdem Canbolat , Kaya Yılmaz 
Published: May 2024

AbstractPrimary total knee arthroplasty (TKA) is one of the most successful procedures for end‐stage knee osteoarthritis. To determine the effect of preoperative knee joint function on postoperative quality of life in patients undergoing primary TKA. This descriptive cross‐sectional study was conducted with a total of 208 patients in the orthopedics and traumatology clinic. Data were gathered with a personal information form, the Oxford Knee Score (OKS), and the EQ‐5D‐5L Quality Of Life Scale in the preoperative period, at postoperative 6th week, and at postoperative 3rd month. The data were analyzed using descriptive statistics, one‐way analysis of variance (ANOVA), correlation analysis, and simple linear regression analysis. The mean age of the patients was 65.65 ± 7.01 years. Most patients (86.1%) were women, and 51.4% underwent left TKA. OKS scores indicated poor knee function preoperatively and gradually increased at postoperative 6th week and 3rd month. Preoperative OKS was a significant predictor of postoperative knee joint function and quality of life. This study shows that preoperative knee joint function significantly affects postoperative knee joint function and quality of life. These results demonstrate the importance of the surgery timing and suggest that performing surgery earlier in functional decline may be associated with a better outcome.
External validation and updating of the infusion rate individualization of soybean oil–based intravenous lipid emulsion: A descriptive cohort study
Authors: Fukushima Keizo , Omura Kenji , Goshi Satoshi , Futatsugi Azusa , Takamori Yoriyuki , Sasamoto Takahiro , Tsujimoto Takae , Iriyama Keiji , Sugioka Nobuyuki 
Published: May 2024

AbstractBackgroundSafe and efficient provision of intravenous lipid emulsion (ILE) requires a strategy to individualize infusion rates. Estimating the maximum acceptable infusion rate (MaxInfRate) of soybean oil–based ILE (SO‐ILE) in individuals by using a triglyceride (TG) kinetic model was reported to be feasible. In this study, we aimed to externally validate and, if needed, update the MaxInfRate estimation.MethodsThe maximum TG concentration (TGmax) in patients receiving SO‐ILE at MaxInfRate was evaluated to determine if it met the definition of being <400 mg/dl for 90th percentile of patients. The TG kinetic model was evaluated through prediction performance checks and was subsequently updated using the data set of both the previous model development and present validation studies.ResultsOut of 83 patients, 74 had TGmax <400 mg/dl, corresponding to a probability of 89.2% (95% CI, 81.9%–95.2%), and the 90th percentile of TGmax was 400 mg/dl (95% CI, 328–490 mg/dl), closely aligned with the theoretical values. However, the individual TGmax values were biased by the infusion rate because the covariate effects were overestimated in the TG kinetic model, requiring a minor revision. The updated MaxInfRate with the combined data set showed unbiased and more accurate predictions.ConclusionThe MaxInfRate was validated in external inpatients and updated with all available data. MaxInfRate estimation for individuals could be an option for the safe and efficient provision of SO‐ILE.
Associations between the composite dietary antioxidant index and abdominal aortic calcification among United States adults: A cross‐sectional study
Authors: Kong Xiufang , Wang Wei 
Published: May 2024

AbstractBackgroundOxidative stress has previously been shown to play a pivotal role in the pathogenesis of vascular calcification. In the present study, we aimed to investigate the association between the composite dietary antioxidant index (CDAI) and abdominal aortic calcification (AAC).MethodsWe conducted a cross‐sectional study of United States adults using data from the 2013–2014 National Health and Nutrition Examination Survey. The CDAI was calculated from vitamins A, C, E, selenium, zinc, and caretenoid through two rounds of 24‐h dietary recall interviews. AAC was assessed by a lateral dual‐energy x‐ray absorptiometry scan of the thoraco‐lumbar spine. The association between CDAI and AAC was evaluated with weighted multivariable logistic regression.ResultsOverall, an unweighted 1081 participants were analyzed, including 110 with AAC and 971 without AAC. In the multivariable fully adjusted logistic regression model, CDAI was significantly associated with AAC (odds ratio = 0.89, 95% CI 0.81–0.98; P = 0.02). Compared with the lowest quartile, the highest quartile of CDAI was related to a 0.33‐fold risk of AAC (95% CI 0.12–0.90; P = 0.03). Subgroup analysis showed that the significant association between CDAI and AAC was only observed in participants without hypertension (P for interaction = 0.002).ConclusionA higher CDAI was associated with a lower prevalence of AAC among adults without hypertension in the US. Further large‐scale prospective studies are required to analyze the protective role of the CDAI in AAC progression.
Effect of Rurality in Head and Neck Cancer: A Scoping Review
Authors: Tomescu Ana , Sullivan Natalie , Davies Camron , Ward Christina , Tillett Natasha , Darras Alex , Gleysteen John P. , Wood C. Burton 
Published: May 2024

ObjectivesThis scoping review sought to evaluate the current literature regarding the following outcomes in relation to rurality: stage at diagnosis, clinical characteristics, treatment characteristics, and survival outcomes of head and neck cancer (HNC).Data SourcesA literature search was performed using PubMed (MEDLINE), Science Direct, EMBASE, SCOPUS, and Web of Science databases.Review MethodsA 20‐year study cutoff from the initial search was used to increase the comparability of the studies regarding population and standards of clinical care. These searches were designed to capture all primary studies reporting HNC incidence, presenting characteristics, treatments, and treatment outcomes. Two reviewers independently screened abstracts, selected articles for exclusion, extracted data, and appraised studies. Critical appraisal was done according to the Joanna Briggs Institute Quality Assessment Tool for Cohort Studies.FindingsTwenty eligible original articles were included. Stage at diagnosis, clinical characteristics, treatment characteristics, and survival outcomes were measured. Our review indicates that although this relationship is unclear, there may be variations in treatment choice for laryngeal cancer based on geographic location and rural residency status. The studies assessing HNC outcomes related to stage at diagnosis, clinical characteristics, treatment characteristics, and overall survival demonstrated conflicting findings, indicating a need for further research examining HNC outcomes with a focus on rurality as the main exposure.ConclusionsThe relationship between HNC and rural‐urban status remains unclear. More studies are needed, along with a consistent metric for measuring rurality and recruitment of comparable populations from both rural and urban areas. Laryngoscope, 134:4441–4457, 2024
Tannic Acid Incorporated Antibacterial Polyethylene Glycol Based Hydrogel Sponges for Management of Wound Infections
Authors: Akin Basak , Akgul Busra , Tasdurmazli Semra , Abamor Emrah Sefik , Ozbek Tulin , Ozcelik Berkay , Su Esra , Ozmen Mehmet Murat 
Published: May 2024

AbstractConventional wound dressings fail to provide features that can assist the healing process of chronic wounds. Multifunctional wound dressings address this issue by incorporating attributes including antibacterial and antioxidant activity, and the ability to enhance wound healing. Herein, polyethylene glycol (PEG)‐based antibacterial hydrogel sponge dressings are prepared by a rapid and facile gas foaming method based on an acid chloride/alcohol reaction where tannic acid (TA) is included as a reactant to impart antibacterial efficacy as well as to enhance the mechanical properties of the samples. The results reveal that the TA‐integrated sponges possess excellent antibacterial properties against both Escherichia coli and Staphylococcus aureus with approximately 6–8 log reduction in the microbial colony count after 6 h, indicating their high potential for management of infection‐prone wounds. Compared to the control sample, TA incorporation increases the elastic modulus by twofold. As the samples also exhibit biocompatibility, antioxidant activity, and wound healing capacity, the novel TA‐incorporated hydrogels can be an alternative to traditional wound dressings for wounds with low‐to‐moderate exudate.
Structural Colored Based Humidity Sensor Consisting of High Resolution 3D Printed Photonic Crystal Coated with Ultrathin Responsive Hydrogels
Authors: Cesnik Stefan , Rodríguez Gabriel Hernández , Coclite Anna Maria , Bergmann Alexander 
Published: May 2024

AbstractToday, humidity sensors have become an integral part of the daily lives. In particular, humidity sensors using an electronic measuring principle have become the standard. Although these sensors have proven to be a stable measurement method, they have some disadvantages, such as their long response time or the danger of using them in explosive environments. This work introduces photonic crystals as an alternative optical measurement approach. The novel technology of ultra‐fast two‐photon polymerisation printing is combined with a thin‐film deposition process, namely iCVD. This allows to print large area high‐precision 3D templates, which are subsequently coated with a humidity responsive hydrogel thin film (p(HEMA) of 20 nm.The limits of 2PP technology are being pushed allowing the production ofs table and periodic large‐area 3D structures. The flexible customization of hydrogels for ambient conditions make them exceptionally promising for a wide range of sensing applications. Additionally, optical methods for measuring humidity seem to be an excellent alternative to overcome the limitations for current state of the art humidity sensors. The optical detection of changes in ambient air humidity is achieved by observing color changes of the printed structure within the visible wavelength range.
A novel method for rapid estimation of active bone marrow dose for radiotherapy patients in epidemiological studies
Authors: Yeom Yeon Soo , Braunstein Lior , Morton Lindsay M. , Bolton Kelly L. , Choi Ji Won , Choi Hyeong Yun , Greenstein Natasha , Lee Choonsik 
Published: May 2024

AbstractBackgroundIn a dedicated effort to improve the assessment of clonal hematopoiesis (CH) and study leukemia risk following radiotherapy, we are developing a large‐scale cohort study among cancer patients who received radiation. To that end, it will be critical to analyze dosimetric parameters of red bone marrow (ABM) exposure in relation to CH and its progression to myeloid neoplasms, requiring reconstruction method for ABM doses of a large‐scale patients rapidly and accurately.PurposeTo support a large‐scale cohort study on the assessment of clonal hematopoiesis and leukemia risk following radiotherapy, we present a new method for the rapid reconstruction of ABM doses of radiotherapy among cancer patients.MethodsThe key idea of the presented method is to segment patient bones rapidly and automatically by matching a whole‐body computational human phantom, in which the skeletal system is divided into 34 bone sites, to patient CT images via 3D skeletal registration. The automatic approach was used to segment site‐specific bones for 40 radiotherapy patients. Also, we segmented the bones manually. The bones segmented both manually and automatically were then combined with the patient dose matrix calculated by the treatment planning system (TPS) to derive patient ABM dose. We evaluated the performance of the automatic method in geometric and dosimetric accuracy by comparison with the manual approach.ResultsThe pelvis showed the best geometric performance [volume overlap fraction (VOF): 52% (mean) with 23% (σ) and average distance (AD): 0.8 cm (mean) with 0.5 cm (σ)]. The pelvis also showed the best dosimetry performance [absorbed dose difference (ADD): 0.7 Gy (mean) with 1.0 Gy (σ)]. Some bones showed unsatisfactory performances such as the cervical vertebrae [ADD: 5.2 Gy (mean) with 10.8 Gy (σ)]. This impact on the total ABM dose, however, was not significant. An excellent agreement for the total ABM dose was indeed observed [ADD: 0.4 Gy (mean) with 0.4 Gy (σ)]. The computation time required for dose calculation using our method was robust (about one minute per patient).ConclusionsWe confirmed that our method estimates ABM doses across treatment sites accurately, while providing high computational efficiency. The method will be used to reconstruct patient‐specific ABM doses for dose‐response assessment in a large cohort study. The method can also be applied to prospective dose calculation within a clinical TPS to support clinical decision making at the point of care.
Enhancing quality and speed in database‐free neural network reconstructions of undersampled MRI with SCAMPI
Authors: Siedler Thomas M. , Jakob Peter M. , Herold Volker 
Published: May 2024

AbstractPurposeWe present SCAMPI (Sparsity Constrained Application of deep Magnetic resonance Priors for Image reconstruction), an untrained deep Neural Network for MRI reconstruction without previous training on datasets. It expands the Deep Image Prior approach with a multidomain, sparsity‐enforcing loss function to achieve higher image quality at a faster convergence speed than previously reported methods.MethodsTwo‐dimensional MRI data from the FastMRI dataset with Cartesian undersampling in phase‐encoding direction were reconstructed for different acceleration rates for single coil and multicoil data.ResultsThe performance of our architecture was compared to state‐of‐the‐art Compressed Sensing methods and ConvDecoder, another untrained Neural Network for two‐dimensional MRI reconstruction. SCAMPI outperforms these by better reducing undersampling artifacts and yielding lower error metrics in multicoil imaging. In comparison to ConvDecoder, the U‐Net architecture combined with an elaborated loss‐function allows for much faster convergence at higher image quality. SCAMPI can reconstruct multicoil data without explicit knowledge of coil sensitivity profiles. Moreover, it is a novel tool for reconstructing undersampled single coil k‐space data.ConclusionOur approach avoids overfitting to dataset features, that can occur in Neural Networks trained on databases, because the network parameters are tuned only on the reconstruction data. It allows better results and faster reconstruction than the baseline untrained Neural Network approach.