bluuebunny/crossref_metadata_2025_split huggingface dataset:
Signal transduction pathway mutations in gastrointestinal (GI) cancers: a systematic review and meta-analysis
Authors: Tabibzadeh Alireza , Tameshkel Fahimeh Safarnezhad , Moradi Yousef , Soltani Saber , Moradi-Lakeh Maziar , Ashrafi G. Hossein , Motamed Nima , Zamani Farhad , Motevalian Seyed Abbas , Panahi Mahshid , Esghaei Maryam , Ajdarkosh Hossein , Mousavi-Jarrahi Alireza , Niya Mohammad Hadi Karbalaie 
Published: October 2020

AbstractThe present study was conducted to evaluate the prevalence of the signaling pathways mutation rate in the Gastrointestinal (GI) tract cancers in a systematic review and meta-analysis study. The study was performed based on the PRISMA criteria. Random models by confidence interval (CI: 95%) were used to calculate the pooled estimate of prevalence via Metaprop command. The pooled prevalence indices of signal transduction pathway mutations in gastric cancer, liver cancer, colorectal cancer, and pancreatic cancer were 5% (95% CI: 3–8%), 12% (95% CI: 8–18%), 17% (95% CI: 14–20%), and 20% (95% CI: 5–41%), respectively. Also, the mutation rates for Wnt pathway and MAPK pathway were calculated to be 23% (95% CI, 14–33%) and 20% (95% CI, 17–24%), respectively. Moreover, the most popular genes were APC (in Wnt pathway), KRAS (in MAPK pathway) and PIK3CA (in PI3K pathway) in the colorectal cancer, pancreatic cancer, and gastric cancer while they were beta-catenin and CTNNB1 in liver cancer. The most altered pathway was Wnt pathway followed by the MAPK pathway. In addition, pancreatic cancer was found to be higher under the pressure of mutation compared with others based on pooled prevalence analysis. Finally, APC mutations in colorectal cancer, KRAS in gastric cancer, and pancreatic cancer were mostly associated gene alterations.
Preoperative communication with anesthetists via anesthesia service platform (ASP) helps alleviate patients’ preoperative anxiety
Authors: Peng Fei ,  Peng Tao , Yang Qiange , Liu Meihan , Chen Guangxiang , Wang Maohua 
Published: October 2020

AbstractFemale gender has been identified as one of the risk factors closely linked to perioperative anxiety and a lower level of satisfaction. A successful preoperative anesthesia education may improve such negative outcomes. The aim of this study was to investigate whether preoperative anesthesia education via an Anesthesia Service Platform (ASP) could reduce the anxiety levels in female patients scheduled for laparoscopic cholecystectomy under general anesthesia, and accelerate rehabilitation. A total of 222 patients scheduled for elective laparoscopic cholecystectomy were randomly assigned to the control group and the ASP group. Patients’ baseline and post-intervention psychological status was measured by the State-Trait Anxiety Inventory and General Well-Being Schedule. Pain management and recovery were assessed by VAS every 12 h for 48 h after surgery; length of stay (LOS) and postoperative analgesic consumption were also assessed. Patients in the control group experienced higher anxiety levels before surgery and had longer LOS than those in the ASP group. Patients in the ASP group had a higher general well-being score; however, they suffered more pain and consumed more analgesics after surgery. ASP is effective for preventing anxiety in female patients before laparoscopic cholecystectomy, improving patients’ general well-being levels, and shortening their LOS, but negatively influences patients’ postoperative pain levels.
Nanofluid flow containing carbon nanotubes with quartic autocatalytic chemical reaction and Thompson and Troian slip at the boundary
Authors: Ramzan Muhammad , Chung Jae Dong , Kadry Seifedine , Chu Yu-Ming , Akhtar Muhammad 
Published: October 2020

AbstractA mathematical model is envisioned to discourse the impact of Thompson and Troian slip boundary in the carbon nanotubes suspended nanofluid flow near a stagnation point along an expanding/contracting surface. The water is considered as a base fluid and both types of carbon nanotubes i.e., single-wall (SWCNTs) and multi-wall (MWCNTs) are considered. The flow is taken in a Dacry-Forchheimer porous media amalgamated with quartic autocatalysis chemical reaction. Additional impacts added to the novelty of the mathematical model are the heat generation/absorption and buoyancy effect. The dimensionless variables led the envisaged mathematical model to a physical problem. The numerical solution is then found by engaging MATLAB built-in bvp4c function for non-dimensional velocity, temperature, and homogeneous-heterogeneous reactions. The validation of the proposed mathematical model is ascertained by comparing it with a published article in limiting case. An excellent consensus is accomplished in this regard. The behavior of numerous dimensionless flow variables including solid volume fraction, inertia coefficient, velocity ratio parameter, porosity parameter, slip velocity parameter, magnetic parameter, Schmidt number, and strength of homogeneous/heterogeneous reaction parameters are portrayed via graphical illustrations. Computational iterations for surface drag force are tabulated to analyze the impacts at the stretched surface. It is witnessed that the slip velocity parameter enhances the fluid stream velocity and diminishes the surface drag force. Furthermore, the concentration of the nanofluid flow is augmented for higher estimates of quartic autocatalysis chemical.
Male sexual orientation, gender nonconformity, and neural activity during mental rotations: an fMRI study
Authors: Folkierska-Żukowska Monika , Rahman Qazi , Marchewka Artur , Wypych Marek , Droździel Dawid , Sokołowski Andrzej , Dragan Wojciech Ł. 
Published: October 2020

AbstractThe cross-sex shift hypothesis predicts that gay men should perform more like heterosexual women on important neurocognitive tasks on which men score higher than women, such as mental rotation. Studies also suggest sex differences exist in the neural correlates of mental rotation. However, no studies have taken sexual orientation into account or considered within-group variation attributable to recalled gender nonconformity (a developmental trait reliably associated with human nonheterosexuality). We quantified the neural correlates of mental rotation by comparing two groups of gay men, gender conforming (n = 23) and gender nonconforming (n = 23), to gender conforming heterosexual men (n = 22) and women (n = 22). We observed a sex difference between heterosexual men and women in the premotor cortex/supplementary motor cortex and left medial superior frontal gyrus. We also observed a sex difference as well as a cross-sex shift in gay men who recalled being gender nonconforming as children in the right superior frontal gyrus, right angular gyrus, right amygdala/parahippocampal gyrus, and bilaterally in the middle temporal gyrus and precuneus. Thus, cross-sex shifts may be associated with underlying developmental factors which are associated with sexual orientation (such as gender nonconformity). The results also suggest that gay men should not be studied as a homogenous group.
Characterising the effect of crop species and fertilisation treatment on root fungal communities
Authors: Soonvald Liina , Loit Kaire , Runno-Paurson Eve , Astover Alar , Tedersoo Leho 
Published: October 2020

AbstractInformation about the root mycobiome may improve the overall quality of the plants and contribute to a valuable strategy to enhance sustainable agriculture. Therefore, we assessed differences in fungal community diversity and composition in the roots of potato, wheat and barley grown under mineral nitrogen fertilisation at five rates, with and without farmyard manure amendment. The same factorial combination of treatments has been used since 1989. Species richness and diversity, as well as community composition, of different fungal guilds were characterised using Illumina MiSeq sequencing of the ITS2 region. Crop species was the main factor determining overall fungal richness and diversity, with wheat showing the highest, and potato the lowest, richness and diversity. Pathogen diversity indices were highest in wheat plots amended with farmyard manure, whereas the lowest values were observed for potato roots. Fertilisation treatments and the interaction between crop species and fertilisation had the strongest impact on arbuscular mycorrhiza and saprotroph diversity. Crop species also determined the composition of the overall fungal community and that of fungal guilds, whereas fertilisation treatment had only a minor effect. This study highlights crop species as the main driver in shaping root fungal diversity and composition under the same environmental conditions.
First molecular examination of Vietnamese mudflat snails in the genus Naranjia Golding, Ponder & Byrne, 2007 (Gastropoda: Amphibolidae)
Authors: Saito Takumi , Prozorova Larisa , Quang Ngo Xuan , Chiba Satoshi 
Published: October 2020

AbstractMaritime ecosystems in Vietnam such as mangroves and mud flats are characterized by high biodiversity. However, elements of its biodiversity remain unclear and highly threatened. In this context, the assessment of rare species is a starting point to develop effective strategies for the conservation of entire ecosystems. In this paper, we report upon cryptic amphibolid gastropods in Vietnamese mangrove forests from the Mekong Delta. The snail fauna in the mangrove forests was previously known from published literature and three museum specimens as three amphibolid species, ‘Amphibola’ burmana, A. quadrasi, Salinator fragilis and ‘S.’ quadrasi. We investigated the identities of such snails using molecular and morphological methods. The amphibolids found in this survey were identified to belong to the genus Naranjia, new for Vietnam fauna. In addition, our phylogenetic analyses suggested that the Vietnamese amphibolids were the same species as Naranjia sp. reported from Thailand, and the amphibolids have both genetic and morphological polymorphisms within the population. These findings add to the great biodiversity of Vietnamese mangrove forests and mudflats.
Brief localised monocular deprivation in adults alters binocular rivalry predominance retinotopically and reduces spatial inhibition
Authors: Han Shui’er , Alais David , MacDougall Hamish , Verstraten Frans A. J. 
Published: October 2020

AbstractShort-term deprivation (2.5 h) of an eye has been shown to boost its relative ocular dominance in young adults. Here, we show that a much shorter deprivation period (3–6 min) produces a similar paradoxical boost that is retinotopic and reduces spatial inhibition on neighbouring, non-deprived areas. Partial deprivation was conducted in the left hemifield, central vision or in an annular region, later assessed with a binocular rivalry tracking procedure. Post-deprivation, dominance of the deprived eye increased when rivalling images were within the deprived retinotopic region, but not within neighbouring, non-deprived areas where dominance was dependent on the correspondence between the orientation content of the stimuli presented in the deprived and that of the stimuli presented in non-deprived areas. Together, these results accord with other deprivation studies showing V1 activity changes and reduced GABAergic inhibition.
CHA2DS2-VASc score, cerebral small vessel disease, and frailty in older patients with atrial fibrillation
Authors: Choi Jung-Yeon , Sunwoo Leonard , Kim Sun-wook , Kim Kwang-il , Kim Cheol-Ho 
Published: October 2020

AbstractThe CHA2DS2-VASc score is a validated predictor of ischemic stroke in atrial fibrillation (AF) patients. However, data are limited on whether the CHA2DS2-VASc score is associated with subclinical brain structural changes or physical frailty among older AF patients. We assessed the relationship between CHA2DS2-VASc scores and brain structural changes or physical frailty in AF patients without history of stroke. Overall, 117 patients completed a comprehensive geriatric assessment for physical frailty. In brain magnetic resonance imaging sub-study (n = 49), brain volume and white matter hyperintensity lesion burden were automatically quantified using the LESIONQUANT software program. Patients with high risk of CHA2DS2-VASc scores (≥ 2 in men or ≥ 3 in women) tended to be older and had more comorbidities, higher frailty index, and slower gait speed. Total white matter hyperintensity lesion burden was higher in those with high risk of CHA2DS2-VASc score than in those with intermediate risk (score of 1 in men or 2 in women) of CHA2DS2-VASc score (1.67 [interquartile range: 0.70–3.45] vs. 0.64 [0.19–1.44],p = 0.036). Cognitive function was associated with brain volume, but gait speed was related with white matter hyperintensity lesion burden. In conclusion, we showed a positive relationship between CHA2DS2-VASc scores, white matter hyperintensity lesion burden, and physical frailty in older AF patients. Subclinical brain changes associated with high CHA2DS2-VASc scores may predict physical frailty risk.
p39-associated Cdk5 activity regulates dendritic morphogenesis
Authors: Ouyang Li , Chen Yu , Wang Ye , Chen Yuewen , Fu Amy K. Y. , Fu Wing-Yu , Ip Nancy Y. 
Published: October 2020

AbstractDendrites, branched structures extending from neuronal cell soma, are specialized for processing information from other neurons. The morphogenesis of dendritic structures is spatiotemporally regulated by well-orchestrated signaling cascades. Dysregulation of these processes impacts the wiring of neuronal circuit and efficacy of neurotransmission, which contribute to the pathogeneses of neurological disorders. While Cdk5 (cyclin-dependent kinase 5) plays a critical role in neuronal dendritic development, its underlying molecular control is not fully understood. In this study, we show that p39, one of the two neuronal Cdk5 activators, is a key regulator of dendritic morphogenesis. Pyramidal neurons deficient in p39 exhibit aberrant dendritic morphology characterized by shorter length and reduced arborization, which is comparable to dendrites in Cdk5-deficient neurons. RNA sequencing analysis shows that the adaptor protein, WDFY1 (WD repeat and FYVE domain-containing 1), acts downstream of Cdk5/p39 to regulate dendritic morphogenesis. While WDFY1 is elevated in p39-deficient neurons, suppressing its expression rescues the impaired dendritic arborization. Further phosphoproteomic analysis suggests that Cdk5/p39 mediates dendritic morphogenesis by modulating various downstream signaling pathways, including PI3K/Akt-, cAMP-, or small GTPase-mediated signaling transduction pathways, thereby regulating cytoskeletal organization, protein synthesis, and protein trafficking.
Changes in peripheral immune populations during pregnancy and modulation by probiotics and ω-3 fatty acids
Authors: Forsberg A. , Abrahamsson T. R. , Nilsson L. , Ernerudh J. , Duchén K. , Jenmalm M. C. 
Published: October 2020

AbstractAllergic diseases have become a major health problem, partly due to reduced microbial stimulation and a decreased dietary ω-3/ω-6 long-chain polyunsaturated fatty acid ratio. Prenatal exposures have been reported to influence allergy development, possibly induced via changes in maternal immune regulation. In a randomized double-blind placebo-controlled multicenter allergy prevention trial (PROOM-3), pregnant women were recruited at gestational week 20, and randomized to four study groups, one receiving bothL. reuterioil drops and ω-3 PUFA capsules (n = 22), the second receiving ω-3 PUFA supplementation and placebo regardingL. reuteri(n = 21), the third receivingL. reuteriand placebo regarding ω-3 PUFA (n = 22) and the fourth group receiving placebo capsules and placebo oil drops (n = 23). In this substudy, supplemental and pregnancy-related effects on maternal peripheral immune cell populations during pregnancy were assessed by flow cytometry immune phenotyping at gestational week 20, 32 and 4 days after delivery. The numbers of activated and regulatory T (Treg) cells (CD45RA−Foxp3++/CD45RA+Foxp3+) were reduced after delivery, with the lowest count in theL. reuterisupplemented group compared with the placebo group 4 days after delivery, while the ω-3 PUFA group did not differ from the placebo group. Several treatment-independent changes were observed during and after pregnancy in lymphocytes (CD4+/8+/19+/56+/45RA+/−), CD14+16+/−monocytes, and in subpopulations of T helper cells (Th) CD4+CD45RA−Tbet+(Th1) and CD4+CD45RA−RORC+(Th17) cells. In conclusion, probiotic supplementation to the mother during the second half of pregnancy resulted in immunomodulatory effects among activated and resting Treg cells. Furthermore, several systemic immune modifying effects of pregnancy were observed.
Application of peptides with an affinity for phospholipid membranes during the automated purification of extracellular vesicles
Authors: Ishida Takenori , Hashimoto Takuma , Masaki Kanako , Funabashi Hisakage , Hirota Ryuichi , Ikeda Takeshi , Tajima Hideji , Kuroda Akio 
Published: October 2020

AbstractExtracellular vesicles (EVs), such as exosomes, have garnered increasing interest because of their potential clinical applications that range from diagnostics to therapeutics. The development of an automated and reproducible EV purification platform would therefore aid the introduction of EV biomarkers and therapies into the clinic. Here, we demonstrate that K8- as well as K-16 peptides (containing 8 and 16 lysine residues with dissociation constants of 102 nM and 11.6 nM for phosphatidylserine, respectively) immobilized on magnetic beads can capture small EVs (< 0.2 µm) from culture supernatants of MCF7 human breast cancer cells. Importantly, the bound EVs could be dissociated from the beads under mild conditions (e.g. 0.5 M NaCl), and the isolated EVs had the typical shapes of EVs under SEM and TEM with a mean particle size of 99 nm. Using the peptide-immobilized beads, we adapted a pre-existing bench top instrument for magnetic separation to perform automated EV purification with higher purity and yield than that obtained using the standard ultracentrifugation method.
Nanostring-based screening for tyrosine kinase fusions in inflammatory myofibroblastic tumors
Authors: Kurihara Taisei , Suehara Yoshiyuki , Akaike Keisuke , Hayashi Takuo , Kohsaka Shinji , Ueno Toshihide , Hasegawa Nobuhiko , Takagi Tatsuya , Sasa Keita , Okubo Taketo , Kim Youngji , Mano Hiroyuki , Yao Takashi , Kaneko Kazuo , Saito Tsuyoshi 
Published: October 2020

AbstractGene expression imbalances were measured for tyrosine kinase (TK) genes using Nanostring in 19 samples of inflammatory myofibroblastic tumor (IMT). All cases were immunohistochemically stained with anaplastic lymphoma kinase (ALK) and pan-tropomyosin-related-kinase (pan-Trk) antibodies. Five cases with imbalanced ALK expression, reported with Nanostring, were tested using fluorescence in situ hybridization (FISH); two cases with imbalanced neurotrophic tyrosine receptor kinase 3 (NTRK3) expression were tested using reverse transcription-polymerase chain reaction (RT-PCR). One case with imbalanced expression for ROS proto-oncogene 1 (ROS1) was tested using RNA sequencing and RT-PCR. TK fusions were detected in all cases with imbalanced TK expression. RNA sequencing detected a FN1–ROS1 fusion gene in an adult IMT case. IMT with ALK rearrangement showed myofibroblast-dominant features. IMT with ETV6–NTRK3 fusion showed prominent lymphoplasmacytic infiltration with scattered myofibroblasts. Pan-Trk IHC revealed only scattered positively stained cells in IMT with ETV6–NTRK3 fusion gene. ROS1-positive IMT showed myofibroblast-dominant features.
Whole transcriptome analysis of adrenal glands from prenatal glucocorticoid programmed hypertensive rodents
Authors: Tharmalingam Sujeenthar , Khurana Sandhya , Murray Alyssa , Lamothe Jeremy , Tai T. C. 
Published: October 2020

AbstractPrenatal glucocorticoid exposure is associated with the development of hypertension in adults. We have previously demonstrated that antenatal dexamethosone (DEX) administration in Wistar-Kyoto dams results in offspring with increased blood pressure coupled with elevated plasma epinephrine levels. In order to elucidate the molecular mechanisms responsible for prenatal DEX-mediated programming of hypertension, a whole-transcriptome analysis was performed on DEX programmed WKY male adrenal glands using the Rat Gene 2.0 microarray. Differential gene expression (DEG) analysis of DEX-exposed offspring compared with saline-treated controls revealed 142 significant DEGs (109 upregulated and 33 downregulated genes). DEG pathway enrichment analysis demonstrated that genes involved in circadian rhythm signaling were most robustly dysregulated. RT-qPCR analysis confirmed the increased expression of circadian genes Bmal1 and Npas2, while Per2, Per3, Cry2 and Bhlhe41 were significantly downregulated. In contrast, gene expression profiling of Spontaneously Hypertensive (SHR) rats, a genetic model of hypertension, demonstrated decreased expression of Bmal1 and Npas2, while Per1, Per2, Per3, Cry1, Cry2, Bhlhe41 and Csnk1D were all upregulated compared to naïve WKY controls. Taken together, this study establishes that glucocorticoid programmed adrenals have impaired circadian signaling and that changes in adrenal circadian rhythm may be an underlying molecular mechanism responsible for the development of hypertension.
Transcapillary transport of water, small solutes and proteins during hemodialysis
Authors: Pstras Leszek , Waniewski Jacek , Lindholm Bengt 
Published: October 2020

AbstractThe semipermeable capillary walls not only enable the removal of excess body water and solutes during hemodialysis (HD) but also provide an essential mechanism for maintaining cardiovascular homeostasis. Here, we investigated transcapillary transport processes on the whole-body level using the three-pore model of the capillary endothelium with large, small and ultrasmall pores. The transcapillary transport and cardiovascular response to a 4-h hemodialysis (HD) with 2 L ultrafiltration were analyzed by simulations in a virtual patient using the three-pore model of the capillary wall integrated in the whole-body compartmental model of the cardiovascular system with baroreflex mechanisms. The three-pore model revealed substantial changes during HD in the magnitude and direction of transcapillary water flows through small and ultrasmall pores and associated changes in the transcapillary convective transport of proteins and small solutes. The fraction of total capillary hydraulic conductivity attributed to ultrasmall pores was found to play an important role in the transcapillary water transport during HD thus influencing the cardiovascular response to HD. The presented model provides a novel computational framework for a detailed analysis of microvascular exchange during HD and as such may contribute to a better understanding of dialysis-induced changes in blood volume and blood pressure.