bluuebunny/crossref_metadata_2025_split huggingface dataset:
A set of molecular markers predicts chemosensitivity to Mitomycin-C following cytoreductive surgery and hyperthermic intraperitoneal chemotherapy for colorectal peritoneal metastasis
Authors: Shannon Nicholas Brian , Tan Joey Wee-Shan , Tan Hwee Leong , Wang Weining , Chen Yudong , Lim Hui Jun , Tan Qiu Xuan , Hendrikson Josephine , Ng Wai Har , Loo Li Yang , Skanthakumar Thakshayeni , Wasudevan Seettha D. , Kon Oi Lian , Lim Tony Kiat Hon , Tan Grace Hwei Ching , Chia Claramae Shulyn , Soo Khee Chee , Ong Chin-Ann Johnny , Teo Melissa Ching Ching 
Published: July 2019

AbstractCytoreductive surgery (CRS) and hyperthermic intraperitoneal chemotherapy (HIPEC) is associated with significant perioperative morbidity and mortality. We aim to generate and validate a biomarker set predicting sensitivity to Mitomycin-C to refine selection of patients with colorectal peritoneal metastasis (CPM) for this treatment. A signature predicting Mitomycin-C sensitivity was generated using data from Genomics of Drug Sensitivity in Cancer and The Cancer Genome Atlas. Validation was performed on CPM patients who underwent CRS-HIPEC (n = 62) using immunohistochemistry (IHC). We determined predictive significance of our set using overall survival as a surrogate endpoint via a logistic regression model. Three potential biomarkers were identified and optimized for IHC. Patients exhibiting lower expression of PAXIP1 and SSBP2 had poorer survival than those with higher expression (p = 0.045 and 0.140, respectively). No difference was observed in patients with differing DTYMK expression (p = 0.715). Combining PAXIP1 and SSBP2 in a set, patients with two dysregulated protein markers had significantly poorer survival than one or no dysregulated marker (p = 0.016). This set independently predicted survival in a Cox regression model (HR 5.097; 95% CI 1.731–15.007; p = 0.003). We generated and validated an IHC prognostic set which could potentially identify patients who are likely to benefit from HIPEC using Mitomycin-C.
Calreticulin Ins5 and Del52 mutations impair unfolded protein and oxidative stress responses in K562 cells expressing CALR mutants
Authors: Salati Simona , Genovese Elena , Carretta Chiara , Zini Roberta , Bartalucci Niccolò , Prudente Zelia , Pennucci Valentina , Ruberti Samantha , Rossi Chiara , Rontauroli Sebastiano , Enzo Elena , Calabresi Laura , Balliu Manjola , Mannarelli Carmela , Bianchi Elisa , Guglielmelli Paola , Tagliafico Enrico , Vannucchi Alessandro M. , Manfredini Rossella 
Published: July 2019

AbstractSomatic mutations of calreticulin (CALR) have been described in approximately 60–80% of JAK2 and MPL unmutated Essential Thrombocythemia and Primary Myelofibrosis patients. CALR is an endoplasmic reticulum (ER) chaperone responsible for proper protein folding and calcium retention. Recent data demonstrated that the TPO receptor (MPL) is essential for the development of CALR mutant-driven Myeloproliferative Neoplasms (MPNs). However, the precise mechanism of action of CALR mutants haven’t been fully unraveled. In this study, we showed that CALR mutants impair the ability to respond to the ER stress and reduce the activation of the pro-apoptotic pathway of the unfolded protein response (UPR). Moreover, our data demonstrated that CALR mutations induce increased sensitivity to oxidative stress, leading to increase oxidative DNA damage. We finally demonstrated that the downmodulation of OXR1 in CALR-mutated cells could be one of the molecular mechanisms responsible for the increased sensitivity to oxidative stress mediated by mutant CALR. Altogether, our data identify novel mechanisms collaborating with MPL activation in CALR-mediated cellular transformation. CALR mutants negatively impact on the capability of cells to respond to oxidative stress leading to genomic instability and on the ability to react to ER stress, causing resistance to UPR-induced apoptosis.
Multiple genotypes of Echovirus 11 circulated in mainland China between 1994 and 2017
Authors: Li Jie , Yan Dongmei , Chen Li , Zhang Yong , Song Yang , Zhu Shuangli , Ji Tianjiao , Zhou Weimin , Gan Fangrong , Wang Xianjun , Hong Mei , Guan Luyuan , Shi Yong , Wu Guizhen , Xu Wenbo 
Published: July 2019

AbstractEchovirus 11 (E-11) is one of the most frequently isolated enteroviruses causing meningitis and other diseases such as hand, foot, and mouth disease (HFMD) and acute flaccid paralysis (AFP). Fifty-nine newly determined E-11 VP1 sequences from the China AFP and HFMD surveillance network and 500 E-11 VP1 sequences obtained from the GenBank database, which were associated with 12 categories of diseases, were screened for phylogenetic analysis. Based on the standard method of genotype classification, E-11 strains circulated worldwide were reclassified into six genotypes as A, B, C, D, E, and F, in which genotype F is newly divided, and genotypes A and C are further divided into A1–5 and C1–4 by this research, whereas genotype D was still divided into D1–5 as in a previous study of Oberste et al. Sub-genotype A1 was the predominant sub-genotype in mainland China between 2008–2017, whereas sub-genotype D5 was the predominant sub-genotype circulated outside China from 1998–2014. However, genotype and sub-genotype spectra showed statistical significance among AFP and HFMD cases (χ2 = 60.86, P < 0.001), suggesting that different genotypes might have a tendency to cause different diseases. Strengthening the surveillance of E-11 might provide further information about pathogenic evolution or specific nucleotide mutation associated with different clinical diseases.
Extracellular matrix composition of connective tissues: a systematic review and meta-analysis
Authors: McKee Turney J. , Perlman George , Morris Martin , Komarova Svetlana V. 
Published: July 2019

AbstractThe function of connective tissues depends on the physical and biochemical properties of their extracellular matrix (ECM), which are in turn dictated by ECM protein composition. With the primary objective of obtaining quantitative estimates for absolute and relative amounts of ECM proteins, we performed a systematic review of papers reporting protein composition of human connective tissues. Articles were included in meta-analysis if they contained absolute or relative quantification of proteins found in the ECM of human bone, adipose tissue, tendon, ligament, cartilage and skeletal muscle. We generated absolute quantitative estimates for collagen in articular cartilage, intervertebral disk (IVD), skeletal muscle, tendon, and adipose tissue. In addition, sulfated glycosaminoglycans were quantified in articular cartilage, tendon and skeletal muscle; total proteoglycans in IVD and articular cartilage, fibronectin in tendon, ligament and articular cartilage, and elastin in tendon and IVD cartilage. We identified significant increases in collagen content in the annulus fibrosus of degenerating IVD and osteoarthritic articular cartilage, and in elastin content in degenerating disc. In contrast, collagen content was decreased in the scoliotic IVD. Finally, we built quantitative whole-tissue component breakdowns. Quantitative estimates improve our understanding of composition of human connective tissues, providing insights into their function in physiology and pathology.
Acoustical cues for perception of emotional vocalizations in rats
Authors: Saito Yumi , Tachibana Ryosuke O. , Okanoya Kazuo 
Published: July 2019

AbstractThe ultrasonic vocalizations of rats can transmit affective states to listeners. For example, rats typically produce shorter calls in a higher frequency range in social situations (pleasant call: PC), whereas they emit longer calls with lower frequency in distress situations (distress call: DC). Knowing what acoustical features contribute to auditory discrimination between these two calls will help to better characterize auditory perception of vocalized sounds in rats. In turn, this could lead to better estimation of models for processing vocalizations in sensory systems in general. Here, using an operant discrimination procedure, we examined the impact of various acoustical features on discriminating emotional ultrasonic vocalizations. We did this by systematically swapping three features (frequency range, time duration, and residual frequency-modulation pattern) between two emotional calls. After rats were trained to discriminate between PC and DC, we presented probe stimuli that were synthesized calls with one or two acoustical features swapped, and examined if the rats judged these calls as either PC or DC. The results revealed that all features were important for discrimination between the two call types, but frequency range provided the most information for discrimination. This supports the hypothesis that while rats utilize all acoustical features to perceive emotional vocalizations, they considerably rely on frequency cues.
Two-Dimensional Polyacrylamide Gel Electrophoresis for Metalloprotein Analysis Based on Differential Chemical Structure Recognition by CBB Dye
Authors: Ishikawa Junko , Maeshima Akinori , Mellinger Allyson , Durand Anne , Bourbon Marie-Line , Higo Daichi , Colyer Christa L. , Shibukawa Masami , Ouchane Soufian , Saito Shingo 
Published: July 2019

AbstractIn an effort to develop an analytical method capable of finding new metalloproteins, this is the first report of a new diagonal gel electrophoresis method to isolate and identify metalloproteins, based on the molecular recognition of holo- and apo-metalloproteins (metalbound and -free forms, respectively) by CBB G-250 dye and employing metal ion contaminant sweeping-blue native-polyacrylamide gel electrophoresis (MICS-BN-PAGE). The difference in electrophoretic mobilities between holo- and apo-forms was exaggerated as a result of interactions between the metalloproteins and the dye with no metal ion dissociation. The different binding modes of proteins with CBB G-250 dye, primarily related to hydrogen bonding, were confirmed by capillary zone electrophoresis (CZE) and molecular docking simulations. Due to in-gel holo/apo conversion between the first and second dimensions of PAGE, holo-metalloproteins in the original sample were completely isolated as spots off the diagonal line in the second dimension of PAGE. To prove the high efficiency of this method for metalloprotein analysis, we successfully identified a copper-binding protein from a total bacterial soluble extract for the first time.
Stretchable Low Impedance Electrodes for Bioelectronic Recording from Small Peripheral Nerves
Authors: Decataldo Francesco , Cramer Tobias , Martelli Davide , Gualandi Isacco , Korim Willian S. , Yao Song T. , Tessarolo Marta , Murgia Mauro , Scavetta Erika , Amici Roberto , Fraboni Beatrice 
Published: July 2019

AbstractMonitoring of bioelectric signals in peripheral sympathetic nerves of small animal models is crucial to gain understanding of how the autonomic nervous system controls specific body functions related to disease states. Advances in minimally-invasive electrodes for such recordings in chronic conditions rely on electrode materials that show low-impedance ionic/electronic interfaces and elastic mechanical properties compliant with the soft and fragile nerve strands. Here we report a highly stretchable low-impedance electrode realized by microcracked gold films as metallic conductors covered with stretchable conducting polymer composite to facilitate ion-to-electron exchange. The conducting polymer composite based on poly(3,4-ethylenedioxythiophene) polystyrene sulfonate (PEDOT:PSS) obtains its adhesive, low-impedance properties by controlling thickness, plasticizer content and deposition conditions. Atomic Force Microscopy measurements under strain show that the optimized conducting polymer coating is compliant with the micro-crack mechanics of the underlying Au-layer, necessary to absorb the tensile deformation when the electrodes are stretched. We demonstrate functionality of the stretchable electrodes by performing high quality recordings of renal sympathetic nerve activity under chronic conditions in rats.
Darkness-induced effects on gene expression in Cosmarium crenatum (Zygnematophyceae) from a polar habitat
Authors: Mundt Florian , Hanelt Dieter , Harms Lars , Heinrich Sandra 
Published: July 2019

AbstractLight is a key environmental regulator in all photosynthetic organisms. Many studies focused on the physiologic response to changes in light availability of species from the Zygnematophyceae, but the impact of the absence of light and the molecular acclimation process on the other side have been poorly understood. Here we present transcriptomic analyses of Cosmarium crenatum from a polar habitat exposed to darkness. The algae were cultured in dark for one week; cell number and quantum yield of photosystem II (Fv/Fm) were monitored. Cell number was stable, but the Fv/Fm decreased in both groups, darkness-treated and control. Gene expression analysis revealed a strong repression of transcripts associated with photosynthesis, photorespiration and cell wall development. General carbohydrate and lipid metabolism were differentially regulated, but starch is shown to be the primary energy source in these conditions. Additionally, C. crenatum induced mRNA responsible for epigenetic modifications which may be a specific response to an adaption and acclimation to polar conditions. Our study sheds light on the molecular acclimation process to darkness and provides ecological implications for new perspectives in this specialized group of green algae.
Evidence of nanoemulsion as an effective control measure for fruit flies Drosophila melanogaster
Authors: Krittika Sudhakar , Indhumathi P. , Vedha Hari B. N. , Ramya Devi D. , Yadav Pankaj 
Published: July 2019

AbstractPesticide resistance is a common concern. It exerts close association with economic and health associated problems in various plants and other organisms. Several approaches have been trialled for attracting and trapping the insects and flies that are acting as vectors for transmission of communicable diseases. Although Drosophila melanogaster (fruit flies) is not an agricultural pest, its presence in consumer dwelling areas is an objection to human, as it indicates signs of an unhealthy environment or products. The current study focuses on the development of nanoemulsion with synthetic attractants and entrapping in sticky glue formulation that could provide prolonged effect for attracting and trapping the fruit flies. The results of our study showed the efficient attractive ability of exposed nanoemulsion (A3E1T) containing amyl acetate, ammonia, ethanol and Tween 80 compared to that of control. While the sex-based effect was not very prominent, the nanoemulsion showed a higher relative response index to the flies and increased activity even during their siesta time. Therefore, the nanoemulsion-based approach could be identified as one of the promising lines of attack and a suitable alternative for the existing fruit fly control measures. The present study is the first of its kind in reporting the ability of nanoemulsion formulation to attract and influence the activity of fruit flies D. melanogaster, up to our best of knowledge.
Advanced 3D Imaging of Uterine Leiomyoma’s Morphology by Propagation-based Phase-Contrast Microtomography
Authors: Giuliani Alessandra , Greco Stefania , Pacilè Serena , Zannotti Alessandro , Delli Carpini Giovanni , Tromba Giuliana , Giannubilo Stefano Raffaele , Ciavattini Andrea , Ciarmela Pasquapina 
Published: July 2019

AbstractUterine leiomyoma is the most common benign smooth muscle tumor in women pelvis, originating from the myometrium. It is caused by a disorder of fibrosis, with a large production and disruption of extracellular matrix (ECM). Medical treatments are still very limited and no preventative therapies have been developed. We supposed that synchrotron-based phase-contrast microtomography (PhC-microCT) may be an appropriate tool to assess the 3D morphology of uterine leiomyoma, without the use of any contrast agent. We used this technique to perform the imaging and the quantitative morphometric analysis of healthy myometrium and pathologic leiomyomas. The quantitative morphometric analysis of collagen bundles was coupled to the Roschger approach. This method, previously only used to evaluate mineralized bone density distribution, was applied here to study the fibrosis mass density distribution in healthy and pathologic biopsies from two patients. This protocol was shown to be powerful in studying uterine leiomyomas, detecting also small signs of the ECM alteration. This is of paramount importance not only for the follow-up of the present study, i.e. the investigation of different compounds and their possible therapeutic benefits, but also because it offers new methodologic possibilities for future studies of the ECM in soft tissues of different body districts.
Locating potentially lethal genes using the abnormal distributions of genotypes
Authors: Ding Xiaojun , Zhu Xiaoshu 
Published: July 2019

AbstractGenes are the basic functional units of heredity. Differences in genes can lead to various congenital physical conditions. One kind of these differences is caused by genetic variations named single nucleotide polymorphisms (SNPs). An SNP is a variation in a single nucleotide that occurs at a specific position in the genome. Some SNPs can affect splice sites and protein structures and cause gene abnormalities. SNPs on paired chromosomes may lead to fatal diseases so that a fertilized embryo cannot develop into a normal fetus or the people born with these abnormalities die in childhood. The distributions of genotypes on these SNP sites are different from those on other sites. Based on this idea, we present a novel statistical method to detect the abnormal distributions of genotypes and locate the potentially lethal genes. The test was performed on HapMap data and 74 suspicious SNPs were found. Ten SNP maps “reviewed” genes in the NCBI database. Among them, 5 genes were related to fatal childhood diseases or embryonic development, 1 gene can cause spermatogenic failure, and the other 4 genes were associated with many genetic diseases. The results validated our method. The method is very simple and is guaranteed by a statistical test. It is an inexpensive way to discover potentially lethal genes and the mutation sites. The mined genes deserve further study.
Improvements in structural and optical properties of wafer-scale hexagonal boron nitride film by post-growth annealing
Authors: Lee Seung Hee , Jeong Hokyeong , Okello Odongo Francis Ngome , Xiao Shiyu , Moon Seokho , Kim Dong Yeong , Kim Gi-Yeop , Lo Jen-Iu , Peng Yu-Chain , Cheng Bing-Ming , Miyake Hideto , Choi Si-Young , Kim Jong Kyu 
Published: July 2019

AbstractRemarkable improvements in both structural and optical properties of wafer-scale hexagonal boron nitride (h-BN) films grown by metal-organic chemical vapor deposition (MOCVD) enabled by high-temperature post-growth annealing is presented. The enhanced crystallinity and homogeneity of the MOCVD-grown h-BN films grown at 1050 °C is attributed to the solid-state atomic rearrangement during the thermal annealing at 1600 °C. In addition, the appearance of the photoluminescence by excitonic transitions as well as enlarged optical band gap were observed for the post-annealed h-BN films as direct consequences of the microstructural improvement. The post-growth annealing is a very promising strategy to overcome limited crystallinity of h-BN films grown by typical MOCVD systems while maintaining their advantage of multiple wafer scalability for practical applications towards two-dimensional electronics and optoelectronics.
High-Performance All-Organic DFB and DBR Waveguide Laser with Various Grating Height Fabricated by a Two-Photon Absorption DLW Method
Authors: Tsutsumi Naoto , Kaida Keiichi , Kinashi Kenji , Sakai Wataru 
Published: July 2019

AbstractOrganic solid-state lasers (OSSLs) with distributed feedback (DFB) structures or distributed Bragg reflectors (DBRs) are promising for potential application in bio-sensing and hazardous materials detection. Here, the laser performances of the all-organic DFB waveguide lasers with various grating heights ranging from 0.4 to 4.7 μm were investigated. The grating structures used as the lasing cavity were fabricated using a two-photon absorption (TPA) direct laser writing (DLW) method with an SU-8 negative photoresist. The laser active layer consisted of a rhodamine 6G (R6G) laser dye and a cellulose acetate (CA) matrix. The R6G/CA solution was spin-coated onto the quartz substrate with the cavity (grating) structures to fabricate the DFB waveguide laser devices. The diffraction order of lasing ranged from m = 4 to 7. As the grating height was increased to 1.9 μm, the slope efficiency increased for all diffraction orders and the threshold decreases for each diffraction order. The dependence of the cavity (grating) length on the laser performances was investigated. The slope efficiency increased as the cavity length increased to 300 μm. The effect of the cavity (grating) position on the slope efficiency and the threshold position of the cavity (grating) was also studied. A maximum slope efficiency of 10.2% was achieved for the DFB waveguide laser device with a cavity (grating) length of 300 μm, a cavity position at 6 mm from the emission edge of the waveguide, and an aspect ratio ≈3 between the grating height of 1.74 μm and the grating width of 0.6 μm for the diffraction order m = 6 for lasing.
Knot spectrum of turbulence
Authors: Cooper R. G. , Mesgarnezhad M. , Baggaley A. W. , Barenghi C. F. 
Published: July 2019

AbstractStreamlines, vortex lines and magnetic flux tubes in turbulent fluids and plasmas display a great amount of coiling, twisting and linking, raising the question as to whether their topological complexity (continually created and destroyed by reconnections) can be quantified. In superfluid helium, the discrete (quantized) nature of vorticity can be exploited to associate to each vortex loop a knot invariant called the Alexander polynomial whose degree characterizes the topology of that vortex loop. By numerically simulating the dynamics of a tangle of quantum vortex lines, we find that this quantum turbulence always contains vortex knots of very large degree which keep forming, vanishing and reforming, creating a distribution of topologies which we quantify in terms of a knot spectrum and its scaling law. We also find results analogous to those in the wider literature, demonstrating that the knotting probability of the vortex tangle grows with the vortex length, as for macromolecules, and saturates above a characteristic length, as found for tumbled strings.
Male mortality rates mirror mortality rates of older females
Authors: Lenart Peter , Kuruczova Daniela , Joshi Peter K. , Bienertová-Vašků Julie 
Published: July 2019

AbstractWomen on average live longer than men, which seems to suggest that women also age slower than men. However, the potential difference in the pace of aging between the sexes is a relatively controversial topic, and both positions, i.e. “men age faster” and “men and women age at the same pace”, have found some support. We therefore employ parametric models previously established in model organisms as well as two nonparametric approaches to compare the pace of aging between the sexes using freely available mortality data from 13 high-income countries. Our results support the hypothesis that men age faster than women while also suggesting that the difference is small and that from a practical standpoint male mortality rates behave similarly to the mortality rates of women approximately eight years their senior.