bluuebunny/crossref_metadata_2025_split huggingface dataset:
Arthroscopic Repair of Acute Rupture of the Deltoid Ligament
Authors: Wircker Patrícia , Silva Miguel Duarte , Caetano João , Dias Rafael , Figueiredo João , Sousa João Vieira , Alçada Rita , da Silva Teresa Alves , Côrte-Real Nuno 
Published: October 2019

Category: Ankle, Arthroscopy, Trauma Introduction/Purpose: An ankle dislocation represents a high-energy traumatic injury that often occurs in traffic accidents or during jumping sports and usually it is associated with bi or trimalleolar fractures. Rupture of the deltoid ligament can occur alone or combined. There is currently extensive literature advocating LCL repair (assisted) by arthroscopy. However, the ruptures of the deltoid ligament are repaired by open technique: direct suture in acute cases and ligamentoplasty involving the Spring ligament in chronic cases. The possibility of repairing by arthroscopy allows an improvement in morbidity and complication rate. Undiagnosed and improperly treated medial collateral ligament (MCL) injuries can lead to disabling conditions. Methods: This study presents three cases of fracture-dislocation of the ankle with rupture of both collateral ligaments. Results: In addition to the usual osteosynthesis, it was also performed a ligament repair of the LCL with the arthroscopic Brostrom procedure. In the presence of medial instability, suture anchors were used to repairing the deltoid ligament and inferior extensor retinaculum via an arthroscopic technique. All patients presented a good functional recovery, two of them with AOFAS above of 83 at the end of the 6-month follow-up and with a complete return to daily living activities. Conclusion: Apart from having studied only three cases, the prospect of injury repaired by minimally invasive surgery in the acute phase seems advantageous in selected patients, avoiding evolution to a disabling chronic situation.
Introduction of a New Index as an Indicator for Achilles Tendon Tendinopathy
Authors: Wirth Stephan , Aregger Fabian , Jungwirth-Weinberger Anna , Jentzsch Thorsten , Hecker Andreas 
Published: October 2019

Category: Sports Introduction/Purpose: Achilles tendon tendinopathy is a common problem in our daily practice. The initial therapy consists of conservative treatment and usually leads to a reduction of pain. In some cases though, there is need for surgical treatment. The most common procedure is debridement of the tendon. If there is advanced damage of the tendon, a flexor hallucis longus (FHL) transfer may be indicated. In the current literature, there is a lack of hard criteria about the indications for such a transfer. Methods: We searched our radiologic database from the years 2016 and 2017 for magnetic resonance imaging (MRI) scans of the Achilles tendon. 60 patients were included in a tendinopathy group and 60 patients in a control group with no signs of tendinopathy. Inclusion criteria were severe tendinopathy for the tendinopathy group and a normal Achilles tendon for the control group. Exclusion criteria were other relevant morphologic changes or history of relevant surgery of the lower limb. Axial MRI scans were analyzed on a level of 4-5 centimeters above the ankle joint. The area of triceps surae (TS) and FHL were measured as well as the diameter of TS and an oblique diameter of FHL (from the medial corner of the fibula to the posteromedial corner of the FHL muscle). Then, quotients of the area of the FHL/TS and diameter of the FHL/TS were built and interobserver agreement was analyzed. Results: The quotients for area and for diameter of the FHL/TS showed significantly (p<0.001) higher values in the tendinopathy group. We also found strong to very strong interobserver agreements (rho=0.744). The median value for the quotient of diameter FHL/TS was 2.0 (interquartile range [IQR] 0.8) in the tendinopathy group versus (vs) 1.7 (IQR 0.3) in the control group. The median value for the quotient of area FHL/TS was 1.8 (IQR 1.3) in the tendinopathy group vs 1.3 (IQR 0.7) in the control group. Conclusion: The quotient of the diameter FHL/TS is easy to obtain in our clinical practice. It indicates a relevant FHL hypertrophy, which occurs in advanced Achilles tendon tendinopathy. A value of 2.0 and higher is indicative of symptomatic tendinopathy and may ultimately support the indication for a FHL transfer, which should be the topic of future research.
Patent ductus arteriosus generates neonatal hemolytic jaundice with thrombocytopenia in Upshaw-Schulman syndrome
Authors: Fujimura Yoshihiro , Lämmle Bernhard , Tanabe Saori , Sakai Kazuya , Kimura Toshiyuki , Kokame Koichi , Miyata Toshiyuki , Takahashi Yukihiro , Taniguchi Shigeki , Matsumoto Masanori 
Published: October 2019

Key Points
One third of patients with USS have a neonatal episode of severe hemolytic jaundice with thrombocytopenia induced by an unknown trigger. A USS patient with persisting PDA and recurrent neonatal hemolysis/thrombocytopenia suggests blood flow through the PDA as trigger.
Nano-metering of Solvated Biomolecules Or Nanoparticles from Water Self-Diffusivity in Bio-inspired Nanopores
Authors: Bergamasco Luca , Alberghini Matteo , Fasano Matteo 
Published: October 2019

Abstract
Taking inspiration from the structure of diatom algae frustules and motivated by the need for new detecting strategies for emerging nanopollutants in water, we analyze the potential of nanoporous silica tablets as metering devices for the concentration of biomolecules or nanoparticles in water. The concept relies on the different diffusion behavior that water molecules exhibit in bulk and nanoconfined conditions, e.g., in nanopores. In this latter situation, the self-diffusion coefficient of water reduces according to the geometry and surface properties of the pore and to the concentration of suspended biomolecules or nanoparticles in the pore, as extensively demonstrated in a previous study. Thus, for a given pore-liquid system, the self-diffusivity of water in nanopores filled with biomolecules or nanoparticles provides an indirect measure of their concentration. Using molecular dynamics and previous results from the literature, we demonstrate the correlation between the self-diffusion coefficient of water in silica nanopores and the concentration of proteins or nanoparticles contained therein. Finally, we estimate the time required for the nanoparticles to fill the nanopores, in order to assess the practical feasibility of the overall nano-metering protocol. Results show that the proposed approach may represent an alternative method for assessing the concentration of some classes of nanopollutants or biomolecules in water.
Moiety modeling framework for deriving moiety abundances from mass spectrometry measured isotopologues
Authors: Jin Huan , Moseley Hunter N. B. 
Published: October 2019

Abstract

Background
Stable isotope tracing can follow individual atoms through metabolic transformations through the detection of the incorporation of stable isotope within metabolites. This resulting data can be interpreted in terms related to metabolic flux. However, detection of a stable isotope in metabolites by mass spectrometry produces a profile of isotopologue peaks that requires deconvolution to ascertain the localization of isotope incorporation.

Results
To aid the interpretation of the mass spectroscopy isotopologue profile, we have developed a moiety modeling framework for deconvoluting metabolite isotopologue profiles involving single and multiple isotope tracers. This moiety modeling framework provides facilities for moiety model representation, moiety model optimization, and moiety model selection. The moiety_modeling package was developed from the idea of metabolite decomposition into moiety units based on metabolic transformations, i.e. a moiety model. The SAGA-optimize package, solving a boundary-value inverse problem through a combined simulated annealing and genetic algorithm, was developed for model optimization. Additional optimization methods from the Python scipy library are utilized as well. Several forms of the Akaike information criterion and Bayesian information criterion are provided for selecting between moiety models. Moiety models and associated isotopologue data are defined in a JSONized format.
By testing the moiety modeling framework on the timecourses of 13C isotopologue data for uridine diphosphate N-acetyl-D-glucosamine (UDP-GlcNAc) in human prostate cancer LnCaP-LN3 cells, we were able to confirm its robust performance in isotopologue deconvolution and moiety model selection.

Conclusions
SAGA-optimize is a useful Python package for solving boundary-value inverse problems, and the moiety_modeling package is an easy-to-use tool for mass spectroscopy isotopologue profile deconvolution involving single and multiple isotope tracers. Both packages are freely available on GitHub and via the Python Package Index.
A hierarchical integration deep flexible neural forest framework for cancer subtype classification by integrating multi-omics data
Authors: Xu Jing , Wu Peng , Chen Yuehui , Meng Qingfang , Dawood Hussain , Dawood Hassan 
Published: October 2019

AbstractBackgroundCancer subtype classification attains the great importance for accurate diagnosis and personalized treatment of cancer. Latest developments in high-throughput sequencing technologies have rapidly produced multi-omics data of the same cancer sample. Many computational methods have been proposed to classify cancer subtypes, however most of them generate the model by only employing gene expression data. It has been shown that integration of multi-omics data contributes to cancer subtype classification.ResultsA new hierarchical integration deep flexible neural forest framework is proposed to integrate multi-omics data for cancer subtype classification named as HI-DFNForest. Stacked autoencoder (SAE) is used to learn high-level representations in each omics data, then the complex representations are learned by integrating all learned representations into a layer of autoencoder. Final learned data representations (from the stacked autoencoder) are used to classify patients into different cancer subtypes using deep flexible neural forest (DFNForest) model.Cancer subtype classification is verified on BRCA, GBM and OV data sets from TCGA by integrating gene expression, miRNA expression and DNA methylation data. These results demonstrated that integrating multiple omics data improves the accuracy of cancer subtype classification than only using gene expression data and the proposed framework has achieved better performance compared with other conventional methods.ConclusionThe new hierarchical integration deep flexible neural forest framework(HI-DFNForest) is an effective method to integrate multi-omics data to classify cancer subtypes.
LncRNA MEG3 influences the proliferation and apoptosis of psoriasis epidermal cells by targeting miR-21/caspase-8
Authors: Jia Hai-Yan , Zhang Kai , Lu Wen-Jing , Xu Gui-Wen , Zhang Jian-Fen , Tang Zhan-Li 
Published: October 2019

Abstract

Background
It was reported that microRNA-21(miR-21) was differentially expressed in the keratinocytes of psoriasis patients, and it may influence the apoptosis and proliferation of cells. The role of lncRNA maternally expressed gene3 (MEG3), a competing endogenous RNAs of miR-21, in the progression of psoriasis remains unclear. We aimed to unfold the influence of MEG3 and miR-21 on the proliferation and apoptosis of psoriasis epidermal cells.

Methods
50μg/L TNF-α was used to treat HaCaTs and NHEKs cells for 24 h, and then different experiments were conducted. qRT-PCR were applied for measuring the mRNA level of MEG3, miR-2, and caspase-8, and the protein expression of caspase-8 was measured with western blotting. Flow cytometry was used for assessing apoptosis. Cell proliferation was detected using MTT and colony formation assays. Dual luciferase reporter assay was applied for confirming the binding site between MEG3 and miR-21, miR-21 and Caspase-8.

Results
A cell model for in vitro studying the role of MEG3 in psoriasis pathophysiology was established using HaCaT and HHEKs. MEG3 was significantly down-regulated in HaCaT, HHEKs, and psoriatic skin samples. MEG3 inhibits proliferation and promotes apoptosis of Activated-HaCaT (Act-HaCaT) and Activated-HHEKs (Act- HHEK) by regulating miR-21, and the binding site between MEG3 and miR-21 was identified. We also found that miR-21 could inhibit the level of caspase-8 and identified the binding site between caspase-8 and miR-21. Some down-stream proteins of caspase-8, Cleaved caspase-8, cytc, and apaf-1 were regulated by miR-21 and MEG3.

Conclusion
MEG3/miR-21 axis may regulate the expression of caspase-8, and further influence the proliferation and apoptosis of psoriasis keratinocyte, Act-HaCaT and Act- HHEK. Therefore, our findings may provide a new thought for the study of pathogenesis and treatment of psoriasis.
Genetic variation of Mycoplasma hyopneumoniae from Brazilian field samples
Authors: Assao Viviane Sisdelli , Scatamburlo Thalita Moreira , Araujo Elaine Nery , Santos Marcus Rebouças , Pereira Carlos Eduardo Real , Guedes Roberto Maurício Carvalho , Bressan Gustavo Costa , Fietto Juliana Lopes Rangel , Chang Yung-Fu , Moreira Maria Aparecida Scatamburlo , Silva-Júnior Abelardo 
Published: October 2019

Abstract

Background
Porcine enzootic pneumonia is a worldwide problem in swine production. The infected host demonstrates a respiratory disease whose etiologic agent is Mycoplasma hyopneumoniae (Mhp). A total of 266 lung samples with Mycoplasma-like lesions were collected from two slaughterhouses. We analyzed the genetic profile of Mhp field samples using 16 genes that encode proteins involved in the mechanisms of bacterial pathogenesis and/or the immune responses of the host. Bioinformatic analyses were performed to classify the Mhp field samples based on their similarity according to the presence of the studied genes.

Results
Our results showed variations in the frequency of the 16 studied genes among different Mhp field samples. It was also noted that samples from the same farm were genetically different from each other and samples from different regions could be genetically similar, which is evidence of the presence of different genetic profiles among the Mhp field strains that circulate in Brazilian swine herds.

Conclusion
This work demonstrated the genetic diversity of several Mhp field strains based on 16 selected genes related to virulence and/or immune response in Brazil. Our findings demonstrate the difference between Mhp field strains could influence the virulence, and we hypothesize that the most frequent genes in Mhp field strains could possibly be used as vaccine candidates. Based on our results, we suspect that Mhp genetic variability may be associated with the frequency of genes among the field strains and we have demonstrated that some Mhp field samples could not have many important genes described in the literature.
Comparative phosphoproteomic analysis of blast resistant and susceptible rice cultivars in response to salicylic acid
Authors: Sun Ranran , Qin Shiwen , Zhang Tong , Wang Zhenzhong , Li Huaping , Li Yunfeng , Nie Yanfang 
Published: October 2019

Abstract

Background
Salicylic acid (SA) is a significant signaling molecule that induces rice resistance against pathogen invasion. Protein phosphorylation carries out an important regulatory function in plant defense responses, while the global phosphoproteome changes in rice response to SA-mediated defense response has not been reported. In this study, a comparative phosphoproteomic profiling was conducted by two-dimensional gel electrophoresis (2-DE) and mass spectrometry (MS) analysis, with two near-isogenic rice cultivars after SA treatment.

Results
Thirty-seven phosphoprotein spots were differentially expressed after SA treatment, twenty-nine of which were identified by MALDI-TOF/TOF MS, belonging to nine functional categories. Phosphoproteins involved in photosynthesis, antioxidative enzymes, molecular chaperones were similarly expressed in the two cultivars, suggesting SA might alleviate decreases in plant photosynthesis, regulate the antioxidant defense activities, thus improving basal resistance response in both cultivars. Meanwhile, phosphoproteins related to defense, carbohydrate metabolism, protein synthesis and degradation were differentially expressed, suggesting phosphorylation regulation mediated by SA may coordinate complex cellular activities in the two cultivars. Furthermore, the phosphorylation sites of four identified phosphoproteins were verified by NanoLC-MS/MS, and phosphorylated regulation of three enzymes (cinnamoyl-CoA reductase, phosphoglycerate mutase and ascorbate peroxidase) was validated by activity determination.

Conclusions
Our study suggested that phosphorylation regulation mediated by SA may contribute to the different resistance response of the two cultivars. To our knowledge, this is the first report to measure rice phosphoproteomic changes in response to SA, which provides new insights into molecular mechanisms of SA-induced rice defense.
Interventional cardiac catheterization predictors at Al-Arabi heart Center in Palestine in 2017
Authors: Alkaiyat Abdulsalam , Abumadi Reham , Atari Shuruq , Sayeh Wasef , Al Zabadi Hamzeh , Sarawan Zaid , Bisharat Fekri , Shakhshir Nizar 
Published: October 2019

Abstract

Background
Cardiac catheterization is performed for both therapeutic and diagnostic reasons, in which the outcome may vary from only medical treatment to the need of percutaneous coronary intervention and ending with coronary artery bypass graft. The primary goal of this study was to determine predictors of revascularization.

Methods
A retrospective cohort study was conducted on data collected from records of patients who underwent cardiac catheterization at Al-Arabi Heart Center in Palestine in 2017. Multivariate logistic regression analysis was carried out to assess the association of sociodemographic and pre-catheterization clinical predictors with revascularization.

Results
A total of 1550 patients were included in the study. The participants mean age was 58 with a SD of 11.7 years, 73.6% were males. 50.2% of patients who underwent an interventional cardiac catheterization tested negative for troponin on presentation. Multivariate logistic regression showed Troponin (RR = 4.5), Age (RR = 1.0), Female gender (RR = 0.4) previous catheterization (RR = 2.0), and existence of diabetes as significant predictors for revascularization. The correlation between ECG on presentation and the subsequent need for an interventional cardiac catheterization was significant only in case of ST-Elevation (RR = 1.5), and T wave inversion (RR = 1.6). CK-MB, Hypertension and ECG with ST-depression were not significant predictors.

Conclusion
This study assessed revascularization predictors in addition to characteristics and outcomes of patients who have undergone cardiac catheterization. The results showed the especially high predictive value of troponin in determining the need for revascularization which outweighed the importance of ECG findings on presentation in making clinical decision regarding catheterization.
Molecular characteristics of carbapenem-resistant Acinetobacter spp. from clinical infection samples and fecal survey samples in Southern China
Authors: Li Si , Duan Xiaonv , Peng Yuan , Rui Yongyu 
Published: October 2019

Abstract

Background
Carbapenem resistance among Acinetobacter species has become a life-threatening problem. As a last resort in the treatment of gram-negative bacteria infection, resistance to colistin is also a serious problem. The aim of study was to analyze the mechanism of resistance and perform genotyping of carbapenem-resistant Acinetobacter from clinical infection and fecal survey samples in Southern China.

Methods
One hundred seventy and 74 carbapenem-resistant Acinetobacter were isolated from clinical infection samples and fecal survey samples, respectively. We detected the related genes, including carbapenemase genes (blaKPC, blaIMP, blaSPM, blaVIM, blaNDM, blaOXA-23-like, blaOXA-24/40-like, blaOXA-51-like, and blaOXA-58-like), colistin resistance-related genes (mcr-1, mcr-2, mcr-3, mcr-4, and mcr-5), a porin gene (carO), efflux pump genes (adeA, adeB, adeC, adeI, adeJ, and adeK), mobile genetic element genes (intI1, intI2, intI3, tnpU, tnp513, IS26, ISAba1, and ISAba125), and the integron variable region. Genotyping was analyzed by enterobacterial repetitive intergenic consensus (ERIC)-PCR and dendrogram cluster analysis.

Results
Among the 244 carbapenem-resistant Acinetobacter, the common carbapenemase-positive genes included the following: blaOXA-51-like, 183 (75.00%); blaOXA-23-like, 174 (71.30%); blaNDM-1, 57 (23.40%); and blaOXA-58-like, 30 (12.30%). The coexistence of mcr-1 and blaNDM-1 in five strains of A. junii was found for the first time. Eleven distinct carO gene variants were detected in 164 (67.20%) strains, and ten novel variants, which shared 92–99% identity with sequences in the Genbank database, were first reported. Efflux system genes were present in approximately 70% of the isolates; adeABC and adeIJK were observed in 76.23 and 72.13%, respectively. Class 1 integrons were detected in 180 (73.80%) strains and revealed that four gene cassette arrays contained 11 distinct genes. The genotyping by ERIC-PCR demonstrated a high genetic diversity of non-baumannii Acinetobacter, and greater than 90% similarity to A. baumannii.

Conclusions
The blaNDM-1 gene was identified in up to 77% of the carbapenem-resistant Acinetobacter isolated from fecal survey samples, indicating that the gut might be a reservoir of resistant opportunistic bacteria. Intestinal bacteria can be transmitted through the fecal-hand, which is a clinical threat, thus, the monitoring of carbapenem-resistant bacteria from inpatients’ feces should be improved, especially for patients who have been using antibiotics for a long time.
Prevalence of and risk factors for methicillin-resistant Staphylococcus aureus nasal carriage in the West of Iran: a population-based cross-sectional study
Authors: Ahmadi Elham , Khojasteh Mohammad , Mortazavi Seyed Mohammad , Khan-Mohammadi Fatemeh , Kazemnia Ali , Beheshtipour Javad , Raeeszadeh Mahdieh 
Published: October 2019

Abstract

Background
Several reports designate the recent increase in community-acquired methicillin-resistant Staphylococcus aureus (CA-MRSA) nasal carriage. Because of the scanty information regarding the nasal carriage sate of MRSA in the west of Iran, the purpose of the present study was to determine the frequency of CA-MRSA in Sanandaj city.

Methods
Swabs collected from anterior nares of 600 volunteers were analyzed for the presence of S. aureus. The isolates were further investigated for methicillin resistance by using the cefoxitin disk diffusion test, followed by PCR-amplification of the mecA gene. SCCmec types and the presence of the Panton-Valentine Leukocidin (pvl) encoding genes were determined through PCR. Finally, the antimicrobial susceptibility of the isolates was determined by the agar diffusion method.

Results
Nasal screening identified 181 S. aureus, of which 55 isolates were MRSA. SCCmec types IV and V were detected in MRSA at frequencies of 80 and 20%, respectively. The overall frequency of pvl genes among the MRSA isolates was 14.54%. MRSA isolates were highly susceptible (98.18%) to mupirocin, gentamicin, and fusidic acid.

Conclusions
The high prevalence of CA-MRSA carriage in the population could pose a serious public health concern for the region. Additionally, advent of drug-resistant pvl-positive strains demands continuous surveillance on the colonization state of CA-MRSA in order to prevent dissemination of the bacterium in the community.