bluuebunny/crossref_metadata_2025_split huggingface dataset:
Comprehensive analysis of KCTD family genes associated with hypoxic microenvironment and immune infiltration in lung adenocarcinoma
Authors: Shi Yuan-Xiang , Zhang Wei-Dong , Dai Peng-Hui , Deng Jun , Tan Li-Hong 
Published: June 2022

AbstractTo obtain novel insights into the tumor biology and therapeutic targets of LUAD, we performed a comprehensive analysis of the KCTD family genes. The expression patterns and clinical significance of the KCTD family were identified through multiple bioinformatics mining. Moreover, the molecular functions and potential mechanisms of differentially expressed KCTDs were evaluated using TIMER 2.0, cBioPortal, GeneMANIA, LinkedOmics and GSEA. The results indicated that the mRNA and protein expression levels of KCTD9, KCTD10, KCTD12, KCTD15 and KCTD16 were significantly decreased in LUAD, while those of KCTD5 were significantly increased. High KCTD5 expression was significantly associated with advanced tumor stage, lymph node metastasis, TP53 mutation and poor prognosis. In addition, KCTD5 was positively correlated with CD8 + T cell, neutrophil, macrophage and dendritic cell infiltration. Additionally, KCTDs demonstrate promising prospects in the diagnosis of LUAD. Importantly, high KCTD5 expression was enriched in signaling pathways associated with the malignant progression of tumors, including the inflammatory response, the IL6/JAK/STAT3 signaling pathway, EMT and hypoxia. Further association analysis showed that KCTD5 was positively correlated with hypoxia-related genes such as HIF1. Overall, KCTDs can be used as molecular targets for the treatment of LUAD, as well as effective molecular biomarkers for diagnosis and prognosis prediction.
Information-optimal local features automatically attract covert and overt attention
Authors: Castellotti Serena , Montagnini Anna , Del Viva Maria Michela 
Published: June 2022

AbstractIn fast vision, local spatial properties of the visual scene can automatically capture the observer’s attention. We used specific local features, predicted by a constrained maximum-entropy model to be optimal information-carriers, as candidate “salient features''. Previous studies showed that participants choose these optimal features as “more salient” if explicitly asked. Here, we investigated the implicit saliency of these optimal features in two attentional tasks. In a covert-attention experiment, we measured the luminance-contrast threshold for discriminating the orientation of a peripheral gabor. In a gaze-orienting experiment, we analyzed latency and direction of saccades towards a peripheral target. In both tasks, two brief peripheral cues, differing in saliency according to the model, preceded the target, presented on the same (valid trials) or the opposite side (invalid trials) of the optimal cue. Results showed reduced contrast thresholds, saccadic latencies, and direction errors in valid trials, and the opposite in invalid trials, compared to baseline values obtained with equally salient cues. Also, optimal features triggered more anticipatory saccades. Similar effects emerged in a luminance-control condition. Overall, in fast vision, optimal features automatically attract covert and overt attention, suggesting that saliency is determined by information maximization criteria coupled with computational limitations.
Clusterin exacerbates interleukin-1β-induced inflammation via suppressing PI3K/Akt pathway in human fibroblast-like synoviocytes of knee osteoarthritis
Authors: Ungsudechachai Tachatra , Honsawek Sittisak , Jittikoon Jiraphun , Udomsinprasert Wanvisa 
Published: June 2022

AbstractThis study aimed to examine, a multifaceted chaperon-like protein exerting anti-inflammatory action, clusterin (CLU), mRNA and protein levels in the systemic and local joint environment of knee osteoarthritis (OA) patients and to determine whether CLU inhibited interleukin (IL)-1β-induced inflammation in knee OA fibroblast-like synoviocytes (FLSs) through modulating phosphatidylinositol-3-kinase (PI3K)/Akt signaling pathway. CLU protein and mRNA expressions in the synovium and its protein levels in plasma and synovial fluid of knee OA patients were measured using immunohistochemistry, real-time PCR, and ELISA, respectively. Anti-inflammatory effect of CLU was further elucidated in knee OA FLSs treated with IL-1β in the absence or presence of CLU, CLU alone, or PI3K inhibitor (LY294002) along with IL-1β and CLU. In a clinical study, compared with knee OA patients without synovitis, CLU protein and mRNA were expressed in the synovium of knee OA patients with synovitis, especially those with high-grade, consistent with analyses of its plasma and synovial fluid levels. CLU mRNA and protein levels were both associated with synovitis severity. An in vitro study uncovered that CLU significantly alleviated IL-1β-induced overproduction of nitric oxide and IL-6 in knee OA FLSs. Furthermore, CLU significantly attenuated inflammation and extracellular matrix degradation induced by IL-1β via down-regulating expressions of IL-6, nuclear factor kappa B, and matrix metalloproteinase-13. Mechanistically, CLU significantly impeded IL-1β-induced Akt phosphorylation in knee OA FLSs, in line with addition of LY294002 along with IL-1β and CLU. These findings suggest that CLU may have potential as a novel therapeutic target for synovitis and cartilage destruction in knee OA.
Microgeophysics and geomatics data integration reveals the internal fracturing conditions of the statue of Ramses II (Museo Egizio, Torino, Italy)
Authors: Colombero Chiara , Dabove P. , Grasso N. , Khosro Anjom F. , Pace F. , Aicardi S. 
Published: June 2022

AbstractThe combined acquisition of 3D ultrasonic tomography and radar scans is growing for cultural heritage diagnostics. Both methods proved to be efficient in the detection and location of fractures and weaknesses within the investigated artefacts. Although the two techniques are widely applied together, an integrated approach for data interpretation is still missing. We present the results of radar and ultrasonic prospections carried out on the statue of the young Ramses II, an absolute masterpiece of the Egyptian art preserved in the collection of the Museo Egizio of Torino (Italy). Geophysical results are incorporated within the 3D model of the statue retrieved from total station measurements, ground-based and handheld laser scanning. A data integration approach is then proposed for the joint interpretation of the geophysical results, exploiting the final ultrasonic velocity model and radar attribute analysis (i.e. local dissimilarity computation) to define a combined damage index. The proposed methodology is efficient in fracture detection and location and improves the readability of the final results also for non-expert geophysical interpreters, offering guidance to the museum for preservation and restoration of the masterpiece.
Ecohydrological effects of water conveyance in a disconnected river in an arid inland river basin
Authors: Chen Yaning , Chen Yapeng , Zhu Chenggang , Wang Yang , Hao Xingming 
Published: June 2022

AbstractWater system management is a worldwide challenge, especially in arid and semi-arid regions. Ecological water conveyance projects aim to raise the groundwater table, thereby saving natural vegetation and curbing ecological deterioration. Since 2000, these projects have been implemented in the arid zone of northwest China, with generally successful outcomes. Taking a portion of the lower reaches of the Tarim River as the study area, this paper analyzes in detail the ecohydrological effects which have occurred since the launching of artificial water conveyance 20 years ago. The results show that the groundwater table in the upper, middle and lower segments of the Tarim River’s lower reaches has been raised on average 4.06, 4.83 and 5.13 m, respectively, while the area of surface water bodies connected to those sections has expanded from 49.00 km2 to 498.54 km2. At the same time, Taitema Lake, which is the terminal lake of the Tarim River, has been revived and now boasts a water area of 455.27 km2. Other findings indicate that the surface ecological response is extremely sensitive and that the area of natural vegetation has expanded to 1423 km2. Furthermore, the vegetation coverage, vegetation index (NDVI), and Net Primary Productivity (NPP) have increased by 132 km2, 0.07 and 7.6 g C m−2, respectively, and the Simpson dominance, McIntosh evenness, and Margalef richness indices have risen by 0.33, 0.35 and 0.49, respectively, in the monitored sample sites. As well, the carbon sink area has expanded from 1.54% to 7.8%. Given the increasing intensity of the occurrence of extreme hydrological events and successive dry years, similar ecological water conveyance projects should be considered elsewhere in China and in other parts of the world. The water conveyance scheme has generally proven successful and should be optimized to enhance the benefits of ecological water conveyance under water resource constraints.
Identification of ferroptosis-related genes for overall survival prediction in hepatocellular carcinoma
Authors: Luo Lianxiang , Yao Xinyue , Xiang Jing , Huang Fangfang , Luo Hui 
Published: June 2022

AbstractFerroptosis is a novel type of cell death depending on iron and is strongly related to the development of tumors. Hepatocellular carcinoma (HCC) is a malignancy with high incidence. Despite some reports demonstrating the relation between ferroptosis-related genes and HCC, more details have not been excavated. In the present study, we collected and analyzed HCC patients' datasets from the TCGA-LIHC project and ICGC portal, respectively. Through the bioinformatic methods, we screened 126 differentially expressed genes. Then a prognostic model was established with four genes (GPX2, MT3, PRDX1, and SRXN1). PRDX1 is the hub gene of the prognosis model and has a high expression in hepatocellular carcinoma tumor tissue and cell lines. We further found that silencing PRDX1 increased the accumulation of ferrous ions and lipid peroxidation accumulation in HEPG2 cells and promoted ferroptosis in hepatocellular carcinoma. In conclusion, the study demonstrated the four-gene signature can be used to predict HCC prognosis. It also revealed the potential function of the ferroptosis-related gene PRDX1 in HCC, which can be a biomarker of the prediction for HCC outcome.
Nanomechanical probing and strain tuning of the Curie temperature in suspended Cr2Ge2Te6-based heterostructures
Authors: Šiškins Makars , Kurdi Samer , Lee Martin , Slotboom Benjamin J. M. , Xing Wenyu , Mañas-Valero Samuel , Coronado Eugenio , Jia Shuang , Han Wei , van der Sar Toeno , van der Zant Herre S. J. , Steeneken Peter G. 
Published: June 2022

AbstractTwo-dimensional magnetic materials with strong magnetostriction are attractive systems for realizing strain-tuning of the magnetization in spintronic and nanomagnetic devices. This requires an understanding of the magneto-mechanical coupling in these materials. In this work, we suspend thin Cr2Ge2Te6 layers and their heterostructures, creating ferromagnetic nanomechanical membrane resonators. We probe their mechanical and magnetic properties as a function of temperature and strain by observing magneto-elastic signatures in the temperature-dependent resonance frequency near the Curie temperature, TC. We compensate for the negative thermal expansion coefficient of Cr2Ge2Te6 by fabricating heterostructures with thin layers of WSe2 and antiferromagnetic FePS3, which have positive thermal expansion coefficients. Thus we demonstrate the possibility of probing multiple magnetic phase transitions in a single heterostructure. Finally, we demonstrate a strain-induced enhancement of TC in a suspended Cr2Ge2Te6-based heterostructure by 2.5 ± 0.6 K by applying a strain of 0.026% via electrostatic force.
Empirical Bayes functional models for hydrogen deuterium exchange mass spectrometry
Authors: Crook Oliver M. , Chung Chun-wa , Deane Charlotte M. 
Published: June 2022

AbstractHydrogen deuterium exchange mass spectrometry (HDX-MS) is a technique to explore differential protein structure by examining the rate of deuterium incorporation for specific peptides. This rate will be altered upon structural perturbation and detecting significant changes to this rate requires a statistical test. To determine rates of incorporation, HDX-MS measurements are frequently made over a time course. However, current statistical testing procedures ignore the correlations in the temporal dimension of the data. Using tools from functional data analysis, we develop a testing procedure that explicitly incorporates a model of hydrogen deuterium exchange. To further improve statistical power, we develop an empirical Bayes version of our method, allowing us to borrow information across peptides and stabilise variance estimates for low sample sizes. Our approach has increased power, reduces false positives and improves interpretation over linear model-based approaches. Due to the improved flexibility of our method, we can apply it to a multi-antibody epitope-mapping experiment where current approaches are inapplicable due insufficient flexibility. Hence, our approach allows HDX-MS to be applied in more experimental scenarios and reduces the burden on experimentalists to produce excessive replicates. Our approach is implemented in the R-package “hdxstats”:https://github.com/ococrook/hdxstats.
Ubiquitin ligases at the nexus of plant responses to biotic and abiotic stresses
Authors: Stone Sophia L. 
Published: June 2022

Abstract
Plants must cope with an ever-changing environment, including concurrent biotic and abiotic stresses. The ubiquitin–proteasome system (UPS) is intricately involved in regulating signaling events that facilitate cellular changes required to mitigate the detrimental effects of environmental stress. A key component of the UPS are ubiquitin ligases (or E3s) that catalyze the attachment of ubiquitin molecules to select substrate proteins, which are then recognized by the 26S proteasome for degradation. With the identification of substrate proteins, a growing number of E3s are shown to differentially regulate responses to abiotic as well as bioitic stresses. The review discusses select E3s to illustrate the role of ubiquitin ligases as negative and/or positive regulators of responses to both biotic and abiotic stresses.
Comparison of Clinical and Radiologic Outcomes between Dural Splitting and Duraplasty for Adult Patients with Chiari Type I Malformation
Authors: Özbek Muhammet Arif , Başak Ahmet Tulgar , Çakıcı Nazlı , Evran Sevket , Kayhan Ahmet , Saygı Tahsin , Baran Oguz 
Published: June 2022

Abstract
Background The most used surgical procedure in the treatment of patients with Chiari type I malformation (CIM) is posterior fossa decompression. However, no consensus has been reached regarding the superiority of either dural splitting or duraplasty. Thus, the aim of this study was to compare clinical and radiologic outcomes between the two techniques used in consecutive patients.
Methods We retrospectively reviewed 74 adult patients with CIM who were diagnosed and treated surgically between 2015 and 2020 at our neurosurgery department. The patients were divided into two groups: dural splitting in group 1 and duraplasty in group 2. Clinical outcomes based on Chicago Chiari Outcome Scale (CCOS) scores at the last control visits were compared between the groups. Radiologic outcomes were compared in terms of tonsillar regression rate based on 12-postoperative-month magnetic resonance images.
Results Overall improved, unchanged, and worsened neurologic statuses were observed in 75.6% (n = 56), 17.5% (n = 13), and 6.7% (n = 5) of our patients, respectively. The mean last visit CCOS scores in groups 1 and 2 were 12.3 ± 2.1 and 13.5 ± 1.7, respectively. The difference between the groups was statistically significant (p < 0.01). The mean tonsillar regression rates were 34.7 ± 17.0% and 52.1 ± 15.3% in groups 1 and 2, respectively, with a statistically significant difference (p < 0.001).
Conclusion Adult patients undergoing duraplasty had better clinical and radiologic outcomes than those treated with dural splitting. Therefore, we recommend decompression with duraplasty for adult CIM patients.
Stereocontrolled Synthesis of Some Novel Azaheterocyclic β-Amino Ester Stereoisomers with Multiple Stereogenic Centers
Authors: Kiss Loránd , Semghouli Anas , Remete Attila M. , Novák Tamás T. 
Published: June 2022

AbstractThe synthesis of some new functionalized azaheterocyclic β-amino esters with multiple stereocenters has been achieved from readily available unsaturated bicyclic β-amino acids by a stereocontrolled synthetic protocol involving N-allylation/propargylation, ring-opening metathesis, and selective ring closure with chemodifferentiation through ring-closing metathesis (RCM). The RCM transformation was investigated under various experimental conditions to analyze the scope of the catalyst, yield, conversion, and substrate effect. The structure of the starting (oxa)norbornene β-amino acids predetermined the structure of the new azaheterocyclic derivatives; the synthetic procedure proceeded with conservation of the configuration of the stereogenic centers.
Safety and Efficacy of Ustekinumab in the Treatment of Crohn Disease: A Systematic Review and Meta-analysis
Authors: Khorshid Mohammed Assem , Cordie Ahmed , Abd-Elsalam Sherief 
Published: June 2022

Abstract
Background and Aims The present systematic review and meta-analysis was designed to estimate the safety and effectiveness of ustekinumab in the treatment of Crohn disease (CD) in clinical trials and observational studies.
Methods We retrieved all the related publications from the PubMed, Cochrane, EBSCO, Google Scholar and EMBASE databases using a systematic search strategy. We only included clinical trials and observational studies that were published in English.
Results Only 31 studies that met the eligibility criteria out of the 733 identified studies were included. The overall clinical response rate in the cohort studies was of 0.539 (95% confidence interval [95%CI]: 0.419–0.659), and in the clinical trials it was of 0.428 (95%CI: 0.356–0.501). The pooled clinical remission rate was of 0.399 (95%CI: 0.295–0.503) in randomized control trials (RCTs,) and of 0.440 (95%CI: 0.339–0.542) in cohort studies. The rate of adverse effects was of 0.158 (95%CI: 0.109–0.207) in cohort studies and of 0.690 (95%CI: 0.633–0.748) in RCTs.
Conclusion Ustekinumab is effective in the treatment of CD. However, more research is required on the safety profiles because there was considerable variation among the included studies.
Predictors of Recurrence of Peritoneal Carcinomatosis among Patients with Colorectal Cancer Following Cytoreductive Surgery alone versus Cytoreductive Surgery Plus HIPEC
Authors: Gareer Waheed Yousry , Mohamed Gamal Amira , Zedan Mohamed H. , Baradei Tarek Sherif Al , Abdalgeleel Shaimaa Abdalaleem , Khairallah Sherif Mohamed 
Published: June 2022

Abstract
Background Peritoneal carcinomatosis (PC) is a lethal regional progression in patients with colorectal cancer (CRC). Treatment with complete cytoreductive surgery (CRS) and hyperthermic intraperitoneal chemotherapy (HIPEC) achieves better local control than systemic palliative chemotherapy.
Objectives To assess the efficacy on the prognosis of CRS and HIPEC compared with CRS only and to identify possible clinicopathological factors associated with the recurrence of PC.
Methods The present retrospective study included all colorectal carcinoma cases with PC subjected to CRS with or without HIPC from January 2009 to June 2018 at the National Cancer Institute (NCI), Cairo University, Cairo, Egypt. The outcome is evaluated in terms of recurrence-free survival (RFS) and its predictors.
Results Out of the 61 patients, 45 patients (73.8%) underwent CRS plus HIPEC, and 16 (26.2%) underwent CRS alone. The 1-year RFS was 55.7%, with a median of 12 months. The risk factors for recurrence identified in the univariate analysis were T4 primary tumor, high-grade, positive lymphovascular invasion (LVI), positive extracapsular nodal spread, and patients treated with CRS only, without HIPEC. In the multivariate analysis, the independent risk factors for recurrence were high grade and patients treated with CRS only.
Conclusion T4 primary tumor, high grade, positive LVI, and positive extracapsular nodal spread seemed to be important predictors of recurrence following the treatment of PC. Our study also demonstrated that the addition of HIPEC to CRS improved the RFS.
McKittrick-Wheelock Syndrome Secondary to Rectal Adenocarcinoma
Authors: Martins Bruno Augusto Alves , Gomes Ana Clara Ramalho , Santos Maria Eduarda de Almeida , Moreira Natascha Mourão , Almeida Romulo Medeiros de , Sousa João Batista de 
Published: June 2022

Abstract
Introduction McKittrick-Wheelock syndrome is a rare condition that arises from a hypersecretory state secondary to large colorectal tumors, mainly villous adenomas, leading to an electrolytic disorder associated with chronic diarrhea that usually persists for years. It is a relatively unknown disease that can lead to severe complications such as acute kidney injury, severe hyponatremia, and hypokalemia. In fact, it causes death in most untreated cases. Surgical removal of the tumor is the most successful treatment, and symptoms tend to disappear after proper management.
Case Report A 62-year-old man with a 2-year history of mucoid diarrhea preceded by abdominal pain presented with acute kidney injury, hyponatremia, and hypokalemia. A digital rectal examination and sigmoidoscopy were performed, and revealed a large laterally-spreading tumor in the rectum. Further investigation showed a rectal tubulovillous adenoma with secondary McKittrick-Wheelock syndrome. An anterior resection of the rectum with a colonic J-pouch and a diverting ileostomy were performed, and the patient improved with the resolution of the renal failure and electrolyte disturbances. The histopathological analysis revealed an invasive rectal adenocarcinoma.
Discussion McKittrick-Wheelock syndrome is a condition with a low incidence that needs early intervention and proper diagnosis. It is of extreme importance that this disease is included in the differential diagnoses for chronic diarrhea associated with an electrolytic disorder.
New Use of an Absorbable Adhesion Barrier (INTERCEED) for Temporary Diverting Ileostomy in Minimally Invasive Rectal Surgery
Authors: Nagasaki Toshiya , Akiyoshi Takashi , Mukai Toshiki , Hiyoshi Yukiharu , Yamaguchi Tomohiro , Fukunaga Yosuke 
Published: June 2022

Abstract
Objectives Sometimes, severe adhesion occurs between the rectus abdominis muscle and the ileal intestinal limbs after temporary diverting ileostomy. This can make ileostomy reversal difficult. The aim of the present study is to assess whether absorbable adhesion barrier made of oxidized regenerated cellulose (INTERCEED) could contribute to improved surgical outcomes in stoma reversal.
Methods This was a single-institutional retrospective study. A total of 36 consecutive patients who underwent ileostomy reversal by a single surgeon were retrospectively reviewed. INTERCEED was inserted between the ileal limbs and the rectus abdominis muscle at the time of ileostomy creation in 12 patients. Surgical outcomes of the ileostomy reversal were compared between patients treated with and without INTERCEED.
Results The degree of adhesion formation between the ileal limbs and the rectus abdominis muscles, operating time, and estimated blood loss were significantly reduced in patients treated with INTERCEED compared with those treated by the conventional approach. None of the patients in the INTERCEED group had postoperative complications after the initial surgery and ileostomy reversal.
Conclusions INTERCEED is suitable for insertion between the ileal limbs and the rectus abdominis muscles because of its softness and flexibility. The use of INTERCEED for diverting ileostomy contributes to reduced adhesion formation, operative time, and blood loss in patients, and further research is needed to confirm our results.