bluuebunny/crossref_metadata_2025_split huggingface dataset:
Transfer of methicillin-resistant Staphylococcus aureus by fist bump versus elbow bump
Authors: Alhmidi Heba , Cadnum Jennifer L. , Wilson Brigid M. , Donskey Curtis J. 
Published: October 2021

AbstractFor 40 patients with methicillin-resistant Staphylococcus aureus (MRSA) colonization, fist bump and elbow bump greetings resulted in frequent transfer of MRSA (25% vs 15%, respectively), but significantly fewer colonies were transferred via the elbow bump. Noncontact greetings should be encouraged to reduce the risk of transfer of healthcare-associated pathogens.
Temperature‐Independent Cloud Phase Retrieval From Shortwave‐Infrared Measurement of GCOM‐C/SGLI With Comparison to CALIPSO
Authors: Nagao Takashi M. , Suzuki Kentaroh 
Published: October 2021

AbstractThe shortwave infrared (SWIR) channels commonly accommodated in satellite‐borne passive sensors contain information on cloud thermodynamic phase as well as cloud optical thickness (COT) and cloud effective radius (CER). This study develops algorithms for simultaneous retrieval of COT, CER, and cloud thermodynamic phase to estimate the fractional probability of the cloud phase as an alternative to discrete discrimination into liquid and ice typical of operational cloud retrievals. Two algorithms were developed and applied to the SWIR channels centered at 1.05, 1.63, and 2.21 μm of Second‐generation Global Imager (SGLI). The first algorithm retrieves COT, CER, and ice COT fractions relative to the total COT, which is a continuous quantity representing the partitioning into liquid and ice phases. The second represents the cloud phase partitioning in the form of differences between radiances observed and simulated under the assumptions of either liquid or ice clouds when retrieving COT and CER. The cloud phases from these algorithms agreed quantitatively with each other, and were able to characterize the phase occurrence on a global scale. The two types of cloud phase characterization were further compared against CALIPSO to find that the zonal‐mean occurrences of the cloud phase from the first algorithm were broadly consistent with those from CALIPSO, except for significantly smaller occurrences of supercooled water clouds in SGLI than in CALIPSO over middle‐to‐high latitude oceans. The cloud phase occurrences were also found to systematically vary with CER and cloud‐top temperature on a global scale in a manner significantly different between SGLI and CALIPSO.
Ion Heating in the Polar Cap Under Northwards IMF Bz
Authors: Lamarche Leslie J. , Varney Roger H. , Reimer Ashton S. 
Published: October 2021

AbstractJoule heating deposits a significant amount of energy into the high‐latitude ionosphere and is an important factor in many magnetosphere‐ionosphere‐thermosphere coupling processes. We consider the relationship between localized temperature enhancements in polar cap measured with the Resolute Bay Incoherent Scatter Radar‐North (RISR‐N) and the orientation of the interplanetary magnetic field (IMF). Based on analysis of 10 years of data, RISR‐N most commonly observes ion heating in the noon sector under northwards IMF . We interpret heating events in that sector as being primarily driven by sunwards plasma convection associated with lobe reconnection. We attempt to model two of the observed temperature enhancements with a data‐driven first principles model of ionospheric plasma transport and dynamics, but fail to fully reproduce the ion temperature enhancements. However, evaluating the ion energy equation using the locally measured ion velocities reproduces the observed ion temperature enhancements. This result indicates that current techniques for estimating global plasma convection pattern are not adequately capturing mesoscale flows in the polar cap, and this can result in underestimation of the energy deposition into the ionosphere and thermosphere.
A Wall‐Like Sharp Downward Branch of the Walker Circulation Above the Western Indian Ocean
Authors: Kohyama Tsubasa , Suematsu Tamaki , Miura Hiroaki , Takasuka Daisuke 
Published: October 2021

AbstractIn the zonal direction, the downward branch of the Walker circulation above the Indian Ocean is only 20° wide, whereas the Pacific counterpart is 90° wide. This zonal sharpness is notable because atmospheric disturbances smaller than the planetary scale can interact with the planetary‐scale Walker circulation through this branch. This zonal sharpness is also imprinted on a unique zonal discontinuity of the tropical rain belt above Northeast Africa. Therefore, we refer to this narrow downward branch as the “Wall,” investigate its climatology and interannual variability, and aim at determining its reason for existence. The strongest season of the lower tropospheric Wall in boreal summer is sustained by horizontal cold advection associated with the Asian Summer Monsoon, whereas another peak in boreal spring is explained by the seasonal migration of zonal winds. Two weak phases of the Wall correspond to two rainy seasons at the Eastern Horn of Africa, which are not reproduced well by the state‐of‐the‐art global climate models. Experiments using a convection‐permitting atmospheric model show that vertical mixing forced by mountain waves in East Africa is necessary for sustaining the Wall. After flattening the East African topography, zonal discontinuity of the tropical rain belt disappears. As for interannual variability, one standard deviation variability of vertical motions at the Wall is associated with one degree of sea surface temperature in the tropical Pacific, and the relationship is strongest in boreal autumn. Nevertheless, total variance is explained more by sea surface temperature in the tropical Indian Ocean.
MCPIP1 inhibits Wnt/β-catenin signaling pathway activity and modulates epithelial-mesenchymal transition during clear cell renal cell carcinoma progression by targeting miRNAs
Authors: Gorka Judyta , Marona Paulina , Kwapisz Oliwia , Waligórska Agnieszka , Pospiech Ewelina , Dobrucki Jurek W. , Rys Janusz , Jura Jolanta , Miekus Katarzyna 
Published: October 2021

AbstractEpithelial-mesenchymal transition (EMT) refers to the acquisition of mesenchymal properties in cells participating in tumor progression. One hallmark of EMT is the increased level of active β-catenin, which can trigger the transcription of Wnt-specific genes responsible for the control of cell fate. We investigated how Monocyte Chemotactic Protein-1-Induced Protein-1 (MCPIP1), a negative regulator of inflammatory processes, affects EMT in a clear cell renal cell carcinoma (ccRCC) cell line, patient tumor tissues and a xenotransplant model. We showed that MCPIP1 degrades miRNAs via its RNase activity and thus protects the mRNA transcripts of negative regulators of the Wnt/β-catenin pathway from degradation, which in turn prevents EMT. Mechanistically, the loss of MCPIP1 RNase activity led to the upregulation of miRNA-519a-3p, miRNA-519b-3p, and miRNA-520c-3p, which inhibited the expression of Wnt pathway inhibitors (SFRP4, KREMEN1, CXXC4, CSNK1A1 and ZNFR3). Thus, the level of active nuclear β-catenin was increased, leading to increased levels of EMT inducers (SNAI1, SNAI2, ZEB1 and TWIST) and, consequently, decreased expression of E-cadherin, increased expression of mesenchymal markers, and acquisition of the mesenchymal phenotype. This study revealed that MCPIP1 may act as a tumor suppressor that prevents EMT by stabilizing Wnt inhibitors and decreasing the levels of active β-catenin and EMT inducers.
The effectiveness of enhanced evidence-based care for depressive disorders: a meta-analysis of randomized controlled trials
Authors: Xiao Le , Qi Han , Zheng Wei , Xiang Yu-Tao , Carmody Thomas J. , Mayes Taryn L. , Trivedi Madhukar H. , Wang Gang 
Published: October 2021

AbstractSeveral care models have been developed to improve treatment for depression, all of which provide “enhanced” evidence-based care (EEC). The essential component of these approaches is Measurement-Based Care (MBC). Specifically, Collaborative Care (CC), and Algorithm-guided Treatment (AGT), and Integrated Care (IC) all use varying forms of rigorous MBC assessment, care management, and/or treatment algorithms as key instruments to optimize treatment delivery and outcomes for depression. This meta-analysis systematically examined the effectiveness of EEC versus usual care for depressive disorders based on cluster-randomized studies or randomized controlled trials (RCTs). PubMed, the Cochrane Library, and PsycInfo, EMBASE, up to January 6th, 2020 were searched for this meta-analysis. The electronic search was supplemented by a manual search. Standardized mean difference (SMD), risk ratio (RR), and their 95% confidence intervals (CIs) were calculated and analyzed. A total of 29 studies with 15,255 participants were analyzed. EEC showed better effectiveness with the pooled RR for response of 1.30 (95%CI: 1.13–1.50, I2 = 81.9%, P < 0.001, 18 studies), remission of 1.35 (95%CI: 1.11–1.64, I2 = 85.5%, P < 0.001, 18 studies) and symptom reduction with a pooled SMD of −0.42 (95%CI: −0.61–(−0.23), I2 = 94.3%, P < 0.001, 19 studies). All-cause discontinuations were similar between EEC and usual care with the pooled RR of 1.08 (95%CI: 0.94–1.23, I2 = 68.0%, P = 0.303, 27 studies). This meta-analysis supported EEC as an evidence-based framework to improve the treatment outcome of depressive disorders.Review registration: PROSPERO: CRD42020163668
ELK4-mediated lncRNA SNHG22 promotes gastric cancer progression through interacting with EZH2 and regulating miR-200c-3p/Notch1 axis
Authors: Mao Xiaqiong , Ji Tao , Liu Aiguo , Weng Yunqi 
Published: October 2021

AbstractLong non-coding RNAs (lncRNAs) play important regulatory roles in the initiation and progression of various cancers. However, the biological roles and the potential mechanisms of lncRNAs in gastric cancers remain unclear. Here, we report that the expression of lncRNA SNHG22 (small nucleolar RNA host gene 22) was significantly increased in GC (Gastric Cancer) tissues and cells, which confers poor prognosis of patients. Knockdown of SNHG22 inhibited the proliferation and invasion ability of GC cells. Moreover, we identified that the transcriptional factor, ELK4 (ETS transcription factor ELK4), could promote SNHG22 expression in GC cells. In addition, using RNA pull-down followed MS assay, we found that SNHG22 directly bound to EZH2 (enhancer of zeste 2 polycomb repressive complex 2 subunit) to suppress the expression of tumor suppressor genes. At the same time, SNHG22 sponged miR-200c-3p to increase Notch1 (notch receptor 1) expression. Taken together, our findings demonstrated the role of SNHG22 on promoting proliferation and invasion of GC cells. And we revealed a new regulatory mechanism of SNHG22 in GC cells. SNHG22 is a promising lncRNA biomarker for diagnosis and prognosis and a potential target for GC treatment.
Essential role of zyxin in platelet biogenesis and glycoprotein Ib-IX surface expression
Authors: Yan Rong , Ge Xinxin , Pang Ningbo , Ye Honglei , Yuan Liuxia , Cheng Bin , Zhou Kangxi , Yang Mengnan , Sun Yueyue , Zhang Suqin , Ding Zhongren , Luo Jincai , Ruan Changgeng , Dai Kesheng 
Published: October 2021

AbstractPlatelets are generated from the cytoplasm of megakaryocytes (MKs) via actin cytoskeleton reorganization. Zyxin is a focal adhesion protein and wildly expressed in eukaryotes to regulate actin remodeling. Zyxin is upregulated during megakaryocytic differentiation; however, the role of zyxin in thrombopoiesis is unknown. Here we show that zyxin ablation results in profound macrothrombocytopenia. Platelet lifespan and thrombopoietin level were comparable between wild-type and zyxin-deficient mice, but MK maturation, demarcation membrane system formation, and proplatelet generation were obviously impaired in the absence of zyxin. Differential proteomic analysis of proteins associated with macrothrombocytopenia revealed that glycoprotein (GP) Ib-IX was significantly reduced in zyxin-deficient platelets. Moreover, GPIb-IX surface level was decreased in zyxin-deficient MKs. Knockdown of zyxin in a human megakaryocytic cell line resulted in GPIbα degradation by lysosomes leading to the reduction of GPIb-IX surface level. We further found that zyxin was colocalized with vasodilator-stimulated phosphoprotein (VASP), and loss of zyxin caused diffuse distribution of VASP and actin cytoskeleton disorganization in both platelets and MKs. Reconstitution of zyxin with VASP binding site in zyxin-deficient hematopoietic progenitor cell-derived MKs restored GPIb-IX surface expression and proplatelet generation. Taken together, our findings identify zyxin as a regulator of platelet biogenesis and GPIb-IX surface expression through VASP-mediated cytoskeleton reorganization, suggesting possible pathogenesis of macrothrombocytopenia.
Relationship between lysosomal dyshomeostasis and progression of diabetic kidney disease
Authors: Wu Man , Zhang Minjie , Zhang Yaozhi , Li Zixian , Li Xingyu , Liu Zejian , Liu Huafeng , Li Xiaoyu 
Published: October 2021

AbstractLysosomes are organelles involved in cell metabolism, waste degradation, and cellular material circulation. They play a key role in the maintenance of cellular physiological homeostasis. Compared with the lysosomal content of other organs, that of the kidney is abundant, and lysosomal abnormalities are associated with the occurrence and development of certain renal diseases. Lysosomal structure and function in intrinsic renal cells are impaired in diabetic kidney disease (DKD). Promoting lysosomal biosynthesis and/or restoring lysosomal function can repair damaged podocytes and proximal tubular epithelial cells, and delay the progression of DKD. Lysosomal homeostasis maintenance may be advantageous in alleviating DKD. Here, we systematically reviewed the latest advances in the relationship between lysosomal dyshomeostasis and progression of DKD based on recent literature to further elucidate the mechanism of renal injury in diabetes mellitus and to highlight the application potential of lysosomal homeostasis maintenance as a new prevention and treatment strategy for DKD. However, research on screening effective interventions for lysosomal dyshomeostasis is still in its infancy, and thus should be the focus of future research studies. The screening out of cell-specific lysosomal function regulation targets according to the different stages of DKD, so as to realize the controllable targeted regulation of cell lysosomal function during DKD, is the key to the successful clinical development of this therapeutic strategy.
Time-ordered dysregulated ceRNA networks reveal disease progression and diagnostic biomarkers in ischemic and dilated cardiomyopathy
Authors: Bai Ziyi , Sun Haoran , Li Xiuhong , Wu Jie , Yuan Hao , Zhang Guangde , Yang Haixiu , Shi Hongbo 
Published: October 2021

AbstractIschemic cardiomyopathy (ICM) and dilated cardiomyopathy (DCM) are the two main causes of heart failure (HF). Despite similar clinical characteristics and common “HF pathways”, ICM and DCM are expected to have different personalized treatment strategies. The underlying mechanisms of ICM and DCM have yet to be fully elucidated. The present study developed a novel computational method for identifying dysregulated long noncoding RNA (lncRNA)–microRNA (miRNA)–mRNA competing endogenous RNA (ceRNA) triplets. Time-ordered dysregulated ceRNA networks were subsequently constructed to reveal the possible disease progression of ICM and DCM based on the method. Biological functional analysis indicated that ICM and DCM had similar features during myocardial remodeling, whereas their characteristics differed during progression. Specifically, disturbance of myocardial energy metabolism may be the main characteristic during DCM progression, whereas early inflammation and response to oxygen are the characteristics that may be specific to ICM. In addition, several panels of diagnostic biomarkers for differentiating non-heart failure (NF) and ICM (NF-ICM), NF-DCM, and ICM-DCM were identified. Our study reveals biological differences during ICM and DCM progression and provides potential diagnostic biomarkers for ICM and DCM.
Incorporating functional priors improves polygenic prediction accuracy in UK Biobank and 23andMe data sets
Authors: Márquez-Luna Carla , Gazal Steven , Loh Po-Ru , Kim Samuel S. , Furlotte Nicholas , Auton Adam ,   23andMe Research Team, Agee Michelle , Alipanahi Babak , Bell Robert K. , Bryc Katarzyna , Elson Sarah L. , Fontanillas Pierre , Hinds David A. , McCreight Jey C. , Huber Karen E. , Kleinman Aaron , Litterman Nadia K. , McIntyre Matthew H. , Mountain Joanna L. , Noblin Elizabeth S. , Northover Carrie A. M. , Pitts Steven J. , Sathirapongsasuti J. Fah , Sazonova Olga V. , Shelton Janie F. , Shringarpure Suyash , Tian Chao , Tung Joyce Y. , Vacic Vladimir , Wilson Catherine H. , Price Alkes L. 
Published: October 2021

AbstractPolygenic risk prediction is a widely investigated topic because of its promising clinical applications. Genetic variants in functional regions of the genome are enriched for complex trait heritability. Here, we introduce a method for polygenic prediction, LDpred-funct, that leverages trait-specific functional priors to increase prediction accuracy. We fit priors using the recently developed baseline-LD model, including coding, conserved, regulatory, and LD-related annotations. We analytically estimate posterior mean causal effect sizes and then use cross-validation to regularize these estimates, improving prediction accuracy for sparse architectures. We applied LDpred-funct to predict 21 highly heritable traits in the UK Biobank (avg N = 373 K as training data). LDpred-funct attained a +4.6% relative improvement in average prediction accuracy (avg prediction R2 = 0.144; highest R2 = 0.413 for height) compared to SBayesR (the best method that does not incorporate functional information). For height, meta-analyzing training data from UK Biobank and 23andMe cohorts (N = 1107 K) increased prediction R2 to 0.431. Our results show that incorporating functional priors improves polygenic prediction accuracy, consistent with the functional architecture of complex traits.
TET2 mutations are associated with hypermethylation at key regulatory enhancers in normal and malignant hematopoiesis
Authors: Tulstrup Morten , Soerensen Mette , Hansen Jakob Werner , Gillberg Linn , Needhamsen Maria , Kaastrup Katja , Helin Kristian , Christensen Kaare , Weischenfeldt Joachim , Grønbæk Kirsten 
Published: October 2021

AbstractMutations in the epigenetic modifier TET2 are frequent in myeloid malignancies and clonal hematopoiesis of indeterminate potential (CHIP) and clonal cytopenia of undetermined significance (CCUS). Here, we investigate associations between TET2 mutations and DNA methylation in whole blood in 305 elderly twins, 15 patients with CCUS and 18 healthy controls. We find that TET2 mutations are associated with DNA hypermethylation at enhancer sites in whole blood in CHIP and in both granulocytes and mononuclear cells in CCUS. These hypermethylated sites are associated with leukocyte function and immune response and ETS-related and C/EBP-related transcription factor motifs. While the majority of TET2-associated hypermethylation sites are shared between CHIP and in AML, we find a set of AML-specific hypermethylated loci at active enhancer elements in hematopoietic stem cells. In summary, we show that TET2 mutations is associated with hypermethylated enhancers involved in myeloid differentiation in both CHIP, CCUS and AML patients.
Mechanistic insight into the chemical treatments of monolayer transition metal disulfides for photoluminescence enhancement
Authors: Li Zhaojun , Bretscher Hope , Zhang Yunwei , Delport Géraud , Xiao James , Lee Alpha , Stranks Samuel D. , Rao Akshay 
Published: October 2021

AbstractThere is a growing interest in obtaining high quality monolayer transition metal disulfides for optoelectronic applications. Surface treatments using a range of chemicals have proven effective to improve the photoluminescence yield of these materials. However, the underlying mechanism for the photoluminescence enhancement is not clear, which prevents a rational design of passivation strategies. Here, a simple and effective approach to significantly enhance the photoluminescence is demonstrated by using a family of cation donors, which we show to be much more effective than commonly used p-dopants. We develop a detailed mechanistic picture for the action of these cation donors and demonstrate that one of them, bis(trifluoromethane)sulfonimide lithium salt (Li-TFSI), enhances the photoluminescence of both MoS2 and WS2 to a level double that of the currently best performing super-acid trifluoromethanesulfonimide (H-TFSI) treatment. In addition, the ionic salts used in our treatments are compatible with greener solvents and are easier to handle than super-acids, providing the possibility of performing treatments during device fabrication. This work sets up rational selection rules for ionic chemicals to passivate transition metal disulfides and increases their potential in practical optoelectronic applications.
Shifting beams at normal incidence via controlling momentum-space geometric phases
Authors: Wang Jiajun , Zhao Maoxiong , Liu Wenzhe , Guan Fang , Liu Xiaohan , Shi Lei , Chan C. T. , Zi Jian 
Published: October 2021

AbstractWhen hitting interfaces between two different media, light beams may undergo small shifts. Such beam shifts cannot be described by the geometrical optics based on Snell’s law and their underlying physics has attracted much attention. Conventional beam shifts like Goos-Hänchen shifts and Imbert-Fedorov shifts not only require obliquely incident beams but also are mostly very small compared to the wavelength and waist size of the beams. Here we propose a method to realize large and controllable polarization-dependent lateral shifts for normally incident beams with photonic crystal slabs. As a proof of the concept, we engineer the momentum-space geometric phase distribution of a normally incident beam by controlling its interaction with a photonic crystal slab whose momentum-space polarization structure is designed on purpose. The engineered geometric phase distribution is designed to result in a large shift of the beam. We fabricate the designed photonic crystal slab and directly observe the beam shift, which is ~5 times the wavelength and approaches the waist radius. Based on periodic structures and only requiring simple manipulation of symmetry, our proposed method is an important step towards practical applications of beam shifting effects.
Effects and prognostic values of miR-30c-5p target genes in gastric cancer via a comprehensive analysis using bioinformatics
Authors: Hu Shangshang , Liu Huaifeng , Zhang Jinyan , Li Shujing , Zhou Huadong , Gao Yu 
Published: October 2021

AbstractGastric cancer (GC) is a common cancer and the leading cause of cancer-related death worldwide. To improve the diagnosis and treatment of GC, it is necessary to identify new biomarkers by investigating the cellular and molecular mechanisms. In this study, miR-30c-5p expression was significantly down-regulated in GC tissues by comprehensive analysis using multiple databases. The target genes of miR-30c-5p with up-regulated expression level in GC were identified, including ADAM12 (a disintegrin and metalloproteinase12), EDNRA (the Endothelin receptor type A), STC1 (stanniocalcin 1), and CPNE8 (the calcium-dependent protein, copine 8). The expression level of ADAM12 was significantly related to depth of invasion (p = 0.036) in GC patients. The expression level of EDNRA was significantly related to grade (P = 0.003), depth of invasion (P = 0.019), and lymphatic metastasis (P = 0.001). The expression level of CPNE8 was significantly related to grade (P = 0.043) and TNM stage (P = 0.027).Gene set enrichment analysis showed that they might participate in GC progression through cancer-related pathways. CIBERSORT algorithm analysis showed that their expressions were related to a variety of tumor-infiltrating immune cells. The higher expression of those target genes might be the independent risk factor for poor survival of GC patients, and they might be potential prognostic markers in GC patients.