bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interactions between nascent proteins and the ribosome surface inhibit co-translational folding
Authors: Cassaignau Anaïs M. E. , Włodarski Tomasz , Chan Sammy H. S. , Woodburn Lauren F. , Bukvin Ivana V. , Streit Julian O. , Cabrita Lisa D. , Waudby Christopher A. , Christodoulou John 
Published: October 2021

AbstractMost proteins begin to fold during biosynthesis on the ribosome. It has been suggested that interactions between the emerging polypeptide and the ribosome surface might allow the ribosome itself to modulate co-translational folding. Here we combine protein engineering and NMR spectroscopy to characterize a series of interactions between the ribosome surface and unfolded nascent chains of the immunoglobulin-like FLN5 filamin domain. The strongest interactions are found for a C-terminal segment that is essential for folding, and we demonstrate quantitative agreement between the strength of this interaction and the energetics of the co-translational folding process itself. Mutations in this region that reduce the extent of binding result in a shift in the co-translational folding equilibrium towards the native state. Our results therefore demonstrate that a competition between folding and binding provides a simple, dynamic mechanism for the modulation of co-translational folding by the ribosome.
Microdrilled tapers to enhance optical fiber lasers for sensing
Authors: Perez-Herrera R. A. , Bravo M. , Roldan-Varona P. , Leandro D. , Rodriguez-Cobo L. , Lopez-Higuera J. M. , Lopez-Amo M. 
Published: October 2021

AbstractIn this work, an experimental analysis of the performance of different types of quasi-randomly distributed reflectors inscribed into a single-mode fiber as a sensing mirror is presented. These artificially-controlled backscattering fiber reflectors are used in short linear cavity fiber lasers. In particular, laser emission and sensor application features are analyzed when employing optical tapered fibers, micro-drilled optical fibers and 50 μm-waist or 100 μm-waist micro-drilled tapered fibers (MDTF). Single-wavelength laser with an output power level of about 8.2 dBm and an optical signal-to-noise ratio of 45 dB were measured when employing a 50 μm-waist micro-drilled tapered optical fiber. The achieved temperature sensitivities were similar to those of FBGs; however, the strain sensitivity improved more than one order of magnitude in comparison with FBG sensors, attaining slope sensitivities as good as 18.1 pm/με when using a 50 μm-waist MDTF as distributed reflector.
Generating synthetic contrast enhancement from non-contrast chest computed tomography using a generative adversarial network
Authors: Choi Jae Won , Cho Yeon Jin , Ha Ji Young , Lee Seul Bi , Lee Seunghyun , Choi Young Hun , Cheon Jung-Eun , Kim Woo Sun 
Published: October 2021

AbstractThis study aimed to evaluate a deep learning model for generating synthetic contrast-enhanced CT (sCECT) from non-contrast chest CT (NCCT). A deep learning model was applied to generate sCECT from NCCT. We collected three separate data sets, the development set (n = 25) for model training and tuning, test set 1 (n = 25) for technical evaluation, and test set 2 (n = 12) for clinical utility evaluation. In test set 1, image similarity metrics were calculated. In test set 2, the lesion contrast-to-noise ratio of the mediastinal lymph nodes was measured, and an observer study was conducted to compare lesion conspicuity. Comparisons were performed using the paired t-test or Wilcoxon signed-rank test. In test set 1, sCECT showed a lower mean absolute error (41.72 vs 48.74; P < .001), higher peak signal-to-noise ratio (17.44 vs 15.97; P < .001), higher multiscale structural similarity index measurement (0.84 vs 0.81; P < .001), and lower learned perceptual image patch similarity metric (0.14 vs 0.15; P < .001) than NCCT. In test set 2, the contrast-to-noise ratio of the mediastinal lymph nodes was higher in the sCECT group than in the NCCT group (6.15 ± 5.18 vs 0.74 ± 0.69; P < .001). The observer study showed for all reviewers higher lesion conspicuity in NCCT with sCECT than in NCCT alone (P ≤ .001). Synthetic CECT generated from NCCT improves the depiction of mediastinal lymph nodes.
Deglacial patterns of South Pacific overturning inferred from 231Pa and 230Th
Authors: Ronge Thomas A. , Lippold Jörg , Geibert Walter , Jaccard Samuel L. , Mieruch-Schnülle Sebastian , Süfke Finn , Tiedemann Ralf 
Published: October 2021

AbstractThe millennial-scale variability of the Atlantic Meridional Overturning Circulation (AMOC) is well documented for the last glacial termination and beyond. Despite its importance for the climate system, the evolution of the South Pacific overturning circulation (SPOC) is by far less well understood. A recently published study highlights the potential applicability of the 231Pa/230Th-proxy in the Pacific. Here, we present five sedimentary down-core profiles of 231Pa/230Th-ratios measured on a depth transect from the Pacific sector of the Southern Ocean to test this hypothesis using downcore records. Our data are consistent with an increase in SPOC as early as 20 ka that peaked during Heinrich Stadial 1. The timing indicates that the SPOC did not simply react to AMOC changes via the bipolar seesaw but were triggered via Southern Hemisphere processes.
Role of organic cation orientation in formamidine based perovskite materials
Authors: Liu Siyu , Wang Jing , Hu Zhe , Duan Zhongtao , Zhang Hao , Zhang Wanlu , Guo Ruiqian , Xie Fengxian 
Published: October 2021

AbstractThe rotation of organic cations is considered to be an important reason for the dynamic changes in stability and photoelectric properties of organic perovskites. However, the specific effect of organic cations rotation on formamidine based perovskite is still unknown. In our work, first-principles calculations based on density functional theory are used to examine the effect of the rotation of formamidine cations in FAPbI3 and FA0.875Cs0.125PbI3. We have comprehensively calculated the structure, electronic and optical properties of them. We found a coupling effect between formamidine cations rotation and cesium atom. This coupling effect changes the inclination angle of octahedron to regulate electron distribution, band gaps, and optical absorption. Hence, changing the cation orientation and substitution atom is a feasible way to dynamically adjust the energy band, dielectric constant and absorption edge of perovskite. Preparing perovskite with tunable properties is just around the corner through this way.
Real world data on symptomology and diagnostic approaches of 27,840 women living with endometriosis
Authors: Becker Kerstin , Heinemann Klaas , Imthurn Bruno , Marions Lena , Moehner Sabine , Gerlinger Christoph , Serrani Marco , Faustmann Thomas 
Published: October 2021

AbstractEndometriosis is a chronic disease that requires a suitable, lifelong treatment. To our knowledge, the Visanne Post-approval Observational Study (VIPOS) is to date the largest real-world, non-interventional study investigating hormonal management of endometriosis. We describe women’s experiences of endometriosis in the real world by considering their symptoms and the diagnostic process in their healthcare setting. Overall, 27,840 women were enrolled from six European countries via networks of gynecologists or specialized centers. Of these, 87.8% of women were diagnosed based on clinical symptoms; the greatest and lowest proportions of women were in Russia (94.1%) and Germany (61.9%), respectively. Most women (82.8%) experienced at least one of the triad of endometriosis-associated pain symptoms: pelvic pain, pain after/during sexual intercourse, and painful menstrual periods. The most frequently reported endometriosis-associated symptoms were painful periods (61.8%), heavy/irregular bleeding (50.8%), and pelvic pain (37.2%). Women reported that endometriosis impacted their mood; 55.6% reported feeling “down”, depressed, or hopeless, and 53.2% reported feeling like a failure or having let down family/friends. VIPOS broadens our understanding of endometriosis based on real-world data by exploring the heterogeneity of symptoms women with endometriosis experience and the differences in diagnostic approaches between European countries.Trial registration: ClinicalTrials.gov, NCT01266421; registered 24 December 2010. Registered in the European Union electronic Register of Post-Authorisation Studies as number 1613.
Pan-cancer analysis of the prognostic and immunological role of PSMB8
Authors: Chen Danxiang , Jin Cong , Dong Xubin , Wen Jialiang , Xia Erjie , Wang Qingxuan , Wang Ouchen 
Published: October 2021

AbstractRecently some evidence has demonstrated the significance of PSMB8 in various malignancies. Nevertheless, PSMB8 (proteasome subunit beta 8), more familiar in the field of immunology contributing to the process of antigen presentation, is indeterminate in the role as a survival predictor of human pan-cancer. Besides, how PSMB8 interacts with immune cell infiltration in the tumor microenvironment requires further research. We then penetrated into the analysis of the PSMB8 expression profile among 33 types of cancer in the TCGA database. The results show that overexpression of PSMB8 was associated with poor clinical outcomes in overall survival (Sartorius et al. in Oncogene 35(22):2881–2892, 2016), disease-specific survival (DSS), disease-free interval (DFI), and progression-free interval (PFI) in most cancer varieties. In addition, there existed distinctly positive correlations between PSMB8 and immunity, reflected straightforwardly in the form of immune scores, tumor-infiltrating immune cells (TIICs) abundance, microsatellite instability, tumor mutation burden, and neoantigen level. Notably, specific markers of dendrite cells exhibited the tightest association with PSMB8 expression in terms of tumor-related immune infiltration patterns. Moreover, gene enrichment analysis showed that elevated PSMB8 expression was related to multiple immune-related pathways. We finally validated the PSMB8 expression in our local breast samples via quantitative PCR assays and concluded that PSMB8 appeared to perform well in predicting the survival outcome of BRCA patients. These findings elucidate the pivotal role of the antigen presentation-related gene PSMB8, which could potentially serve as a robust biomarker for prognosis determination in multiple cancers.
DLEU1 promotes oral squamous cell carcinoma progression by activating interferon-stimulated genes
Authors: Hatanaka Yui , Niinuma Takeshi , Kitajima Hiroshi , Nishiyama Koyo , Maruyama Reo , Ishiguro Kazuya , Toyota Mutsumi , Yamamoto Eiichiro , Kai Masahiro , Yorozu Akira , Sekiguchi Shohei , Ogi Kazuhiro , Dehari Hironari , Idogawa Masashi , Sasaki Yasushi , Tokino Takashi , Miyazaki Akihiro , Suzuki Hiromu 
Published: October 2021

AbstractLong noncoding RNAs (lncRNAs) are deeply involved in cancer development. We previously reported that DLEU1 (deleted in lymphocytic leukemia 1) is one of the lncRNAs overexpressed in oral squamous cell carcinoma (OSCC) cells, where it exhibits oncogenic activity. In the present study, we further clarified the molecular function of DLEU1 in the pathogenesis of OSCC. Chromatin immunoprecipitation-sequencing (ChIP-seq) analysis revealed that DLEU1 knockdown induced significant changes in the levels of histone H3 lysine 4 trimethylation (H3K4me3) and H3K27 acetylation (H3K27ac) in OSCC cells. Notably, DLEU1 knockdown suppressed levels of H3K4me3/ H3K27ac and expression of a number of interferon-stimulated genes (ISGs), including IFIT1, IFI6 and OAS1, while ectopic DLEU1 expression activated these genes. Western blot analysis and reporter assays suggested that DLEU1 upregulates ISGs through activation of JAK-STAT signaling in OSCC cells. Moreover, IFITM1, one of the ISGs induced by DLUE1, was frequently overexpressed in primary OSCC tumors, and its knockdown inhibited OSCC cell proliferation, migration and invasion. These findings suggest that DLEU1 exerts its oncogenic effects, at least in part, through activation of a series ISGs in OSCC cells.
Antiferromagnetic and ferromagnetic spintronics and the role of in-chain and inter-chain interaction on spin transport in the Heisenberg ferromagnet
Authors: Lima L. S. 
Published: October 2021

AbstractSpin-transport and current-induced torques in ferromagnet heterostructures given by a ferromagnetic domain wall are investigated. Furthermore, the continuum spin conductivity is studied in a frustrated spin system given by the Heisenberg model with ferromagnetic in-chain interaction $$J_1<0$$

J
1

<
0

between nearest neighbors and antiferromagnetic next-nearest-neighbor in-chain interaction $$J_2>0$$

J
2

>
0

with aim to investigate the effect of the phase diagram of the critical ion single anisotropy $$D_c$$

D
c

as a function of $$J_2$$

J
2

on conductivity. We consider the model with the moderate strength of the frustrating parameter such that in-chain spin-spin correlations that are predominantly ferromagnetic. In addition, we consider two inter-chain couplings $$J_{\perp ,y}$$

J

⊥
,
y

and $$J_{\perp ,z}$$

J

⊥
,
z

, corresponding to the two axes perpendicular to chain where ferromagnetic as well as antiferromagnetic interactions are taken into account.
The impact of network topological structures on systematic technology adoption and carbon emission reduction
Authors: Chen Huayi , Shi Huai-Long 
Published: October 2021

AbstractThis paper investigates how the topological structure of the technological spillover network among agents affects the adoption of a new clean technology and the reduction of system’s carbon emissions. Through building a systematic technology adoption model with technological spillover effect among agents from the network perspective, this paper first illustrates how the new technology diffuses from the earlier adopters to the later adopters under different network topological structures. Further, this paper examines how the carbon emission constraints imposed on pilot agents affect the carbon emissions of other agents and the entire system under different network topological structures. Simulation results of our study suggest that, (1) different topological structures of the technological spillover network have great influence on the adoption and diffusion of a new advanced technology; (2) imposing carbon emission constraints on pilot agents can reduce carbon emissions of other agents and thereby the entire system. However, the effectiveness of the carbon emission constraints is also largely determined by the network topological structures. Our study implies that the empirical research of the network topological structure among the participating entities is a pre-requisite to evaluate the real effectiveness of a carbon emission reduction policy from the system perspective.
Differential regulation of the water channel protein aquaporins in chondrocytes of human knee articular cartilage by aging
Authors: Kyung Bong Soo , Jung Koo Whang , Yeo Woo Jin , Seo Hye Kyung , Lee Yong-Soo , Suh Dong Won 
Published: October 2021

AbstractKnee cartilage is in an aqueous environment filled with synovial fluid consisting of water, various nutrients, and ions to maintain chondrocyte homeostasis. Aquaporins (AQPs) are water channel proteins that play an important role in water exchange in cells, and AQP1, -3, and -4 are known to be expressed predominantly in cartilage. We evaluated the changes in AQP expression in chondrocytes from human knee articular cartilage in patients of different ages and identified the key factor(s) that mediate age-induced alteration in AQP expression. The mRNA and protein expression of AQP1, -3 and -4 were significantly decreased in fibrocartilage compared to hyaline cartilage and in articular cartilage from older osteoarthritis patients compared to that from young patients. Gene and protein expression of AQP1, -3 and -4 were altered during the chondrogenic differentiation of C3H10T1/2 cells. The causative factors for age-associated decrease in AQP included H2O2, TNFα, and HMGB1 for AQP1, -3, and -4, respectively. In particular, the protective effect of AQP4 reduction following HMGB1 neutralization was noteworthy. The identification of other potent molecules that regulate AQP expression represents a promising therapeutic approach to suppress cartilage degeneration during aging.
Mutant Gossypium universal stress protein-2 (GUSP-2) gene confers resistance to various abiotic stresses in E. coli BL-21 and CIM-496-Gossypium hirsutum
Authors: Hafeez Muhammad Nadeem , Khan Mohsin Ahmad , Sarwar Bilal , Hassan Sameera , Ali Qurban , Husnain Tayyab , Rashid Bushra 
Published: October 2021

AbstractGossypium arboreum is considered a rich source of stress-responsive genes and the EST database revealed that most of its genes are uncharacterized. The full-length Gossypium universal stress protein-2 (GUSP-2) gene (510 bp) was cloned in E. coli and Gossypium hirsutum, characterized and point mutated at three positions, 352–354, Lysine to proline (M1-usp-2) & 214–216, aspartic acid to serine (M2-usp-2) & 145–147, Lysine to Threonine (M3-usp-2) to study its role in abiotic stress tolerance. It was found that heterologous expression of one mutant (M1-usp-2) provided enhanced tolerance against salt and osmotic stresses, recombinant cells have higher growth up to 10-5dilution in spot assay as compared to cells expressing W-usp-2 (wild type GUSP-2), M2-usp-2 and M3-usp-2 genes. M1-usp-2 gene transcript profiling exhibited significant expression (8.7 fold) in CIM-496-Gossypium hirsutum transgenic plants and enhance drought tolerance. However, little tolerance against heat and cold stresses in bacterial cells was observed. The results from our study concluded that the activity of GUSP-2 was enhanced in M1-usp-2 but wipe out in M2-usp-2 and M3-usp-2 response remained almost parallel to W-usp-2. Further, it was predicted through in silico analysis that M1-usp-2, W-usp-2 and M3-usp-2 may be directly involved in stress tolerance or function as a signaling molecule to activate the stress adaptive mechanism. However, further investigation will be required to ascertain its role in the adaptive mechanism of stress tolerance.
Bolus transit of upper esophageal sphincter on high-resolution impedance manometry study correlate with the laryngopharyngeal reflux symptoms
Authors: Wu Jia-Feng , Hsu Wei-Chung , Tsai I.-Jung , Tong Tzu-Wei , Lin Yu-Cheng , Yang Chia-Hsiang , Tseng Ping-Huei 
Published: October 2021

AbstractLaryngopharyngeal reflux symptom is a troublesome upper esophageal problem, and reflux symptom index (RSI) is commonly applied for the assessment of clinical severity. We investigated the relationship between the upper esophageal sphincter impedance integral (UESII) and RSI scores in this study. Totally 158 subjects with high-resolution esophageal impedance manometry (HRIM) with RSI questionnaire assessment were recruited. There are 57 (36.08%), 74 (46.84%), 21 (13.29%), and 6 (3.79%) patients were categorized as normal, ineffective esophageal motility disorder, absent contractility, and achalasia by HRIM examination, respectively. Subjects with RSI > 13 were noted to have lower UESII than others with RSI ≦ 13 (7363.14 ± 1085.58 vs. 11,833.75 ± 918.77 Ω s cm; P < 0.005). The ROC analysis yielded a UESII cutoff of < 2900 Ω s cm for the best prediction of subjects with RSI > 13 (P = 0.002). Both female gender and UESII cutoff of < 2900 Ω s cm were significant predictors of RSI > 13 in logistic regression analysis (OR = 3.84 and 2.83; P = 0.001 and 0.01; respectively). Lower UESII on HRIM study, indicating poor bolus transit of UES during saline swallows, is significantly associated with prominent laryngopharyngeal reflux symptoms scored by RSI score.
A beneficial role of computer-aided diagnosis system for less experienced physicians in the diagnosis of thyroid nodule on ultrasound
Authors: Kang Sunyoung , Lee Eunjung , Chung Chae Won , Jang Han Na , Moon Joon Ho , Shin Yujin , Kim Kyuho , Li Ying , Shin Soo Myoung , Kim Yoo Hyung , Kwon Seul Ki , Ahn Chang Ho , Jung Kyong Yeun , Hong A. Ram , Park Young Joo , Park Do Joon , Kwak Jin Young , Cho Sun Wook 
Published: October 2021

AbstractUltrasonography (US) is the primary diagnostic tool for thyroid nodules, while the accuracy is operator-dependent. It is widely used not only by radiologists but also by physicians with different levels of experience. The aim of this study was to investigate whether US with computer-aided diagnosis (CAD) has assisting roles to physicians in the diagnosis of thyroid nodules. 451 thyroid nodules evaluated by fine-needle aspiration cytology following surgery were included. 300 (66.5%) of them were diagnosed as malignancy. Physicians with US experience less than 1 year (inexperienced, n = 10), or more than 5 years (experienced, n = 3) reviewed the US images of thyroid nodules with or without CAD assistance. The diagnostic performance of CAD was comparable to that of the experienced group, and better than those of the inexperienced group. The AUC of the CAD for conventional PTC was higher than that for FTC and follicular variant PTC (0.925 vs. 0.499), independent of tumor size. CAD assistance significantly improved diagnostic performance in the inexperienced group, but not in the experienced groups. In conclusion, the CAD system showed good performance in the diagnosis of conventional PTC. CAD assistance improved the diagnostic performance of less experienced physicians in US, especially in diagnosis of conventional PTC.
Therapeutically expanded human regulatory T-cells are super-suppressive due to HIF1A induced expression of CD73
Authors: Jarvis Lorna B. , Rainbow Daniel B. , Coppard Valerie , Howlett Sarah K. , Georgieva Zoya , Davies Jessica L. , Mullay Harpreet Kaur , Hester Joanna , Ashmore Tom , Van Den Bosch Aletta , Grist James T. , Coles Alasdair J. , Mousa Hani S. , Pluchino Stefano , Mahbubani Krishnaa T. , Griffin Julian L. , Saeb-Parsy Kourosh , Issa Fadi , Peruzzotti-Jametti Luca , Wicker Linda S. , Jones Joanne L. 
Published: October 2021

AbstractThe adoptive transfer of regulatory T-cells (Tregs) is a promising therapeutic approach in transplantation and autoimmunity. However, because large cell numbers are needed to achieve a therapeutic effect, in vitro expansion is required. By comparing their function, phenotype and transcriptomic profile against ex vivo Tregs, we demonstrate that expanded human Tregs switch their metabolism to aerobic glycolysis and show enhanced suppressive function through hypoxia-inducible factor 1-alpha (HIF1A) driven acquisition of CD73 expression. In conjunction with CD39, CD73 expression enables expanded Tregs to convert ATP to immunosuppressive adenosine. We conclude that for maximum therapeutic benefit, Treg expansion protocols should be optimised for CD39/CD73 co-expression.