bluuebunny/crossref_metadata_2025_split huggingface dataset:
A proteogenomic approach for protein-level evidence of genomic variants in cancer cells
Authors: Yeom Jeonghun , Kabir Mohammad Humayun , Lim Byungho , Ahn Hee-Sung , Kim Seon-Young , Lee Cheolju 
Published: October 2016

AbstractVariations in protein coding sequence may sometimes play important roles in cancer development. However, since variants may not express into proteins due to various cellular quality control systems, it is important to get protein-level evidence of the genomic variations. We present a proteogenomic strategy getting protein-level evidence of genomic variants, which we call sequential targeted LC-MS/MS based on prediction of peptide pI and Retention time (STaLPIR). Our approach shows improved peptide identification, and has the potential for the unbiased analysis of variant sequence as well as corresponding reference sequence. Integrated analysis of DNA, mRNA and protein suggests that protein expression level of the nonsynonymous variant is regulated either before or after translation, according to influence of the variant on protein function. In conclusion, our data provides an excellent approach getting direct evidence for the expression of variant protein forms from genome sequence data.
Effects of aged garlic extract and FruArg on gene expression and signaling pathways in lipopolysaccharide-activated microglial cells
Authors: Song Hailong , Lu Yuan , Qu Zhe , Mossine Valeri V. , Martin Matthew B. , Hou Jie , Cui Jiankun , Peculis Brenda A. , Mawhinney Thomas P. , Cheng Jianlin , Greenlief C. Michael , Fritsche Kevin , Schmidt Francis J. , Walter Ronald B. , Lubahn Dennis B. , Sun Grace Y. , Gu Zezong 
Published: October 2016

AbstractAged garlic extract (AGE) is widely used as a dietary supplement on account of its protective effects against oxidative stress and inflammation. But less is known about specific molecular targets of AGE and its bioactive components, includingN-α-(1-deoxy-D-fructos-1-yl)-L-arginine (FruArg). Our recent study showed that both AGE and FruArg significantly attenuate lipopolysaccharide (LPS)-induced neuroinflammatory responses in BV-2 microglial cells. This study aims to unveil effects of AGE and FruArg on gene expression regulation in LPS stimulated BV-2 cells. Results showed that LPS treatment significantly altered mRNA levels from 2563 genes. AGE reversed 67% of the transcriptome alteration induced by LPS, whereas FruArg accounted for the protective effect by reversing expression levels of 55% of genes altered by LPS. Key pro-inflammatory canonical pathways induced by the LPS stimulation included toll-like receptor signaling, IL-6 signaling, and Nrf2-mediated oxidative stress pathway, along with elevated expression levels of genes, such asIl6, Cd14, Casp3, Nfkb1, Hmox1,andTnf. These effects could be modulated by treatment with both AGE and FruArg. These findings suggests that AGE and FruArg are capable of alleviating oxidative stress and neuroinflammatory responses stimulated by LPS in BV-2 cells.
A novel microbe-based treatment that attenuates the inflammatory profile in a mouse model of allergic airway disease
Authors: Bazett Mark , Biala Agnieszka , Huff Ryan D. , Bosiljcic Momir , Gunn Hal , Kalyan Shirin , Hirota Jeremy A. 
Published: October 2016

AbstractThere is an unmet need for effective new and innovative treatments for asthma. It is becoming increasingly evident that bacterial stimulation can have beneficial effects at attenuating allergic airway disease through immune modulation. Our aim was to test the ability of a novel inactivated microbe-derived therapeutic based on Klebsiella (KB) in a model of allergic airway disease in mice. BALB/c mice were exposed intranasally to house dust mite (HDM) for two weeks. Mice were treated prophylactically via subcutaneous route with either KB or placebo for one week prior to HDM exposure and throughout the two week exposure period. 24 hours after the last exposure, lungs were analysed for inflammatory cell infiltrate, gene expression, cytokine levels, goblet cell metaplasia, and serum was analysed for allergen-specific serum IgE levels. HDM exposed mice developed goblet cell hyperplasia, elevated allergen-specific serum IgE, airway eosinophilia, and a concomitant increase in TH2 cytokines including IL-4, IL-13 and IL-5. Treatment with KB attenuated HDM-mediated airway eosinophilia, total bronchoalveolar lavage (BAL) cell numbers, BAL TH2 cytokine production, and goblet cell metaplasia. Our prophylactic intervention study illustrates the potential of subcutaneous treatment with bacterial derived biologics as a promising approach for allergic airway disease treatment.
Polymorphic beams and Nature inspired circuits for optical current
Authors: Rodrigo José A. , Alieva Tatiana 
Published: October 2016

AbstractLaser radiation pressure is a basis of numerous applications in science and technology such as atom cooling, particle manipulation, material processing, etc. This light force for the case of scalar beams is proportional to the intensity-weighted wavevector known as optical current. The ability to design the optical current according to the considered application brings new promising perspectives to exploit the radiation pressure. However, this is a challenging problem because it often requires confinement of the optical current within tight light curves (circuits) and adapting its local value for a particular task. Here, we present a formalism to handle this problem including its experimental demonstration. It consists of a Nature-inspired circuit shaping with independent control of the optical current provided by a new kind of beam referred to as polymorphic beam. This finding is highly relevant to diverse optical technologies and can be easily extended to electron and x-ray coherent beams.
Dual-targeting anti-angiogenic cyclic peptides as potential drug leads for cancer therapy
Authors: Chan Lai Yue , Craik David J. , Daly Norelle L. 
Published: October 2016

AbstractPeptide analogues derived from bioactive hormones such as somatostatin or certain growth factors have great potential as angiogenesis inhibitors for cancer applications. In an attempt to combat emerging drug resistance many FDA-approved anti-angiogenesis therapies are co-administered with cytotoxic drugs as a combination therapy to target multiple signaling pathways of cancers. However, cancer therapies often encounter limiting factors such as high toxicities and side effects. Here, we combined two anti-angiogenic epitopes that act on different pathways of angiogenesis into a single non-toxic cyclic peptide framework, namely MCoTI-II (Momordica cochinchinensis trypsin inhibitor-II), and subsequently assessed the anti-angiogenic activity of the novel compound. We hypothesized that the combination of these two epitopes would elicit a synergistic effect by targeting different angiogenesis pathways and result in improved potency, compared to that of a single epitope. This novel approach has resulted in the development of a potent, non-toxic, stable and cyclic analogue with nanomolar potency inhibition in in vitro endothelial cell migration and in vivo chorioallantoic membrane angiogenesis assays. This is the first report to use the MCoTI-II framework to develop a 2-in-1 anti-angiogenic peptide, which has the potential to be used as a form of combination therapy for targeting a wide range of cancers.
Longer latency of sensory response to intravenous odor injection predicts olfactory neural disorder
Authors: Kikuta Shu , Matsumoto Yu , Kuboki Akihito , Nakayama Tsuguhisa , Asaka Daiya , Otori Nobuyoshi , Kojima Hiromi , Sakamoto Takashi , Akinori Kashio , Kanaya Kaori , Ueha Rumi , Kagoya Ryoji , Nishijima Hironobu , Toma-Hirano Makiko , Kikkawa Yayoi , Kondo Kenji , Tsunoda Koichi , Miyaji Tempei , Yamaguchi Takuhiro , Kataoka Kazunori , Mori Kensaku , Yamasoba Tatsuya 
Published: October 2016

AbstractA near loss of smell may result from conductive and/or neural olfactory disorders. However, an olfactory test to selectively detect neural disorders has not been established. We investigated whether onset latency of sensory response to intravenous odor injection can detect neural disorders in humans and mice. We showed that longer preoperative onset latency of odor recognition to intravenous odor in patients with chronic rhinosinusitis predicted worse recovery of olfactory symptoms following sinus surgery. The onset latency of the olfactory sensory neuron (OSN) response to intravenous odor using synaptopHluorin signals from OSN axon terminals was delayed in mice with reduced numbers of OSNs (neural disorder) but not with increased mucus or blocked orthonasal pathways (conductive disorders). Moreover, the increase in onset latency correlated with the decrease in mature OSN numbers. Longer onset latency to intravenous odor injection is a useful biomarker for presence and severity of olfactory disorders with neural etiology.
Pseudo-Mannosylated DC-SIGN Ligands as Immunomodulants
Authors: Berzi Angela , Ordanini Stefania , Joosten Ben , Trabattoni Daria , Cambi Alessandra , Bernardi Anna , Clerici Mario 
Published: October 2016

AbstractDC-SIGN, a C-type lectin mainly expressed by DCs, mediates antigen uptake and can induce specific immune responses, depending on the ligand involved. Owing to these properties, DC-SIGN is an attracting target for approaches aimed at tailoring the immune response towards specific immunologic outcomes. A multivalent DC-SIGN ligand (Polyman26), containing at its core a fluorescent “rod-like” spacer and able to inhibit DC-SIGN mediated HIV infection in nanomolar concentration, has been recently developed by our group. We investigated the internalization pattern and the ability of Polyman26 to elicit innate immune responses. Results obtained by confocal microscopy indicate that Polyman26 is internalized by DCs via receptor- mediated endocytosis and is then routed to endolysosomal compartments, thus being presented together with MHC class II molecules, with important implications for the development of vaccines. Moreover, Polyman26 up-regulated the production of β-chemokines and pro-inflammatory cytokines (including IL-1β, IL-6, IL-12, and TNFα) as well as the expression of TLR9 and CD40L. These results indicate that glycomimetic DC-SIGN ligands should be further investigated and suggest that these compounds could be used to differentially stimulate immune responses.
Multiplex quantification of four DNA targets in one reaction with Bio-Rad droplet digital PCR system for GMO detection
Authors: Dobnik David , Štebih Dejan , Blejec Andrej , Morisset Dany , Žel Jana 
Published: October 2016

AbstractThe advantages of the digital PCR technology are already well documented until now. One way to achieve better cost efficiency of the technique is to use it in a multiplexing strategy. Droplet digital PCR platforms, which include two fluorescence filters, support at least duplex reactions and with some developments and optimization higher multiplexing is possible. The present study not only shows a development of multiplex assays in droplet digital PCR, but also presents a first thorough evaluation of several parameters in such multiplex digital PCR. Two 4-plex assays were developed for quantification of 8 different DNA targets (7 genetically modified maize events and maize endogene). Per assay, two of the targets were labelled with one fluorophore and two with another. As current analysis software does not support analysis of more than duplex, a new R- and Shiny-based web application analysis tool (http://bit.ly/ddPCRmulti) was developed that automates the analysis of 4-plex results. In conclusion, the two developed multiplex assays are suitable for quantification of GMO maize events and the same approach can be used in any other field with a need for accurate and reliable quantification of multiple DNA targets.
Yb‐doped large‐mode‐area aluminosilicate laser fibre fabricated by chelate precursor doping technique
Authors: Peng Kun , Wang Zhen , Zhan Huan , Ni Li , Gao Cong , Wang Xiaolong , Wang Yuying , Wang Jianjun , Jing Feng , Lin Aoxiang 
Published: October 2016

A modified chelate precursor doping technique using high‐purity materials and accurate gas flow control system is proposed to fabricate an efficient ytterbium‐doped large‐mode‐area silica fibre for laser development. This technique enables to make homogeneous large‐core preform with symmetrical shape, relatively low numerical aperture of ∼0.06 and large‐core size of over 4 mm. Homemade preform was drawn into standard fibre for testing and fully characterised by electron probe microanalysis and time‐of‐flight secondary ion mass spectrometry. On the basis of two‐stage master oscillator power amplifier system, 1 kW laser output with slope efficiency of 81.0% was realised at ∼1064 nm.
Autonomous plug and play electric vehicle charging scenarios including reactive power provision: a probabilistic load flow analysis
Authors: Melhorn Alexander C. , McKenna Killian , Keane Andrew , Flynn Damian , Dimitrovski Aleksandar 
Published: October 2016

Electric vehicle (EV) charging can have various impacts on low‐voltage distribution systems, along with increasing the uncertainty of network load levels. One method for capturing the statistical uncertainty is probabilistic load flow (PLF). A primary concern of such an approach is determining the correlation between the input variables. Since data are limited, a 1 min resolution bottom‐up time‐variant load model, capturing the changing voltage dependencies of the load, is used for modelling household electrical demand to provide pseudo‐meter data for the three‐phase PLF analysis of a residential distribution network. The correlation between the household and EV charging loads are implicitly taken into account by modelling the EV plug‐in and departure times with the corresponding occupancy model. Two autonomous plug‐and‐play charging scenarios are compared with a standard charging arrangement at both unity and 0.95 capacitive power factors. Four different PLF input correlation scenarios, varying from fully correlated to fully independent, are considered. The proposed charging scenarios and reactive power provision reduce the likelihood of system voltage violations introduced by EVs. The PLF results are verified against those from the initial time‐series analysis providing valuable insight into the uncertainty introduced by EVs and the correlation between household and EV loads.
Synthesis and properties of polyacrylamide by nanoparticles, effect nanoclay on stability polyacrylamide solution
Authors: Cheraghian Goshtasp 
Published: October 2016

Polyacrylamide (PAM)‐encapsulated clay nanoparticles (NPs) were successfully synthesised by conventional emulsion polymerisation for solving the aggregation matter of nanoscaled clay. A novel nanofluid based on PAM has been developed and its’ attributes have been experimentally tested as an optimised solution. The frequency, sonication time effect, NPs and polymer concentration on the constant salinity and particle size (PS) distribution of samples was investigated. The solutions of polymer at different frequencies (10, 20 and 30 kHz) were treated with ultrasound for different times (5 and 15 min). The results showed that increasing sonication time decreased mean diameter of nanoclay mass and also showed with an increment range of frequency in specified range improved rheology and dispersion of the solution. Clay NPs were found to have a positive effect on the stability of samples.
Assembly and transfer of tripartite integrative and conjugative genetic elements
Authors: Haskett Timothy L. , Terpolilli Jason J. , Bekuma Amanuel , O’Hara Graham W. , Sullivan John T. , Wang Penghao , Ronson Clive W. , Ramsay Joshua P. 
Published: October 2016

Significance
Integrative and conjugative elements (ICEs) are one of the most prevalent but least-characterized families of mobile genetic elements in bacteria. We identified a family of ICEs that exists as three separate parts integrated within the single chromosomes of symbiotic mesorhizobia. These “tripartite ICEs,” through a series of chromosomal recombinations mediated by integrase proteins, assemble into a single circular ICE. Following transfer to nonsymbiotic mesorhizobia, tripartite ICEs integrate and disassemble into three parts in the recipient genome and exconjugant mesorhizobia gain the ability to form a symbiosis with legumes. These discoveries expand our appreciation of the potential for gene transfer in bacteria and demonstrate how mobile genetic elements can dramatically manipulate the bacterial genome.
Translating erased history: Inter-Asian translation of the national Changgeuk company of Korea’s Romeo and Juliet
Authors: Takiguchi Ken 
Published: October 2016

Abstract
As a western canonical text, Shakespeare has been translated and staged in East Asia in various ways and often adapted into traditional performance styles to counterbalance its western textual canonicity with the authenticity of eastern performative forms and styles. Negotiations between west and east, which reflect the colonial and postcolonial experiences of the region, have been a critical focus of academic investigations.
What is remarkable, yet often overlooked in the west and in Asia itself, is that there were complex negotiations among East Asian translators and theatre practitioners in the early reception and translation of Shakespeare. The doubleness of Japanese colonialism – which first behaved as the “east” that absorbed western culture and later took the position of the “west” that provided advanced modern culture and technology to neighbouring countries – is the most notable element in inter-Asian cultural negotiation in the early twentieth century in general, and in the translation and staging of Shakespeare in particular. Such historicity in translation was nevertheless generally unrecognized, and even ignored, in the post–World War II cultural and social contexts in East Asia.
This essay aims to explore the “erased” historicity of the translation in East Asia by examining Japanese translation of the National Changgeuk Theatre of Korea’s production of Romeo and Juliet (2009) as it was published in a multilingual online digital archive called Asian Shakespeare Intercultural Archive (A|S|I|A), and to add another layer to the existing discourses on translation in this region that have mainly focused on the east-west binary. The translation strategies employed by the A|S|I|A team have sought to address the complexity of the history of translation of Shakespeare in Korea and Japan, and of discourse making in the postcolonial South Korea. The article also suggests the potential of a digital platform like A|S|I|A in capturing and representing inter-Asian negotiations thanks to its capacity to juxtapose multiple elements of translation on the screen.
Tolerogenic immunoreceptor ILT3/LILRB4 paradoxically marks pathogenic auto-antibody-producing plasmablasts and plasma cells in non-treated SLE
Authors: Inui Masanori , Sugahara-Tobinai Akiko , Fujii Hiroshi , Itoh-Nakadai Ari , Fukuyama Hidehiro , Kurosaki Tomohiro , Ishii Tomonori , Harigae Hideo , Takai Toshiyuki 
Published: October 2016

AbstractPlasmablasts and plasma cells (PBs and PCs) producing pathogenic auto-antibodies in patients with systemic autoimmune diseases could be a better target for specific therapies for the disease than general immunosuppression or pan- or activated B-cell targeting. Our previous study indicated that leukocyte immunoglobulin-like receptor (LILR) B4 (B4, also known as ILT3/LIR-5/CD85k), a tolerogenic receptor in antigen-presenting cells, is ectopically expressed on the PB/PC surface in healthy individuals. Here, we show that the enlarged population size of PBs/PCs with augmented B4 expression is characteristic in non-treated systemic lupus erythematosus (SLE). Paradoxically, the transcription frequency of the anti-double-strand DNA immunoglobulin-coding VH sequence in the B4+ population of non-treated SLE was significantly higher than that in B4− cells. B4+ and B4− PBs/PCs were suggested to be developmentally equivalent based on the simultaneous generation of these populations upon activation of memory B cells in vitro. B4 expression was found to be induced efficiently by IL-2, while IFN-α effectively induced B4+ PBs/PCs in vitro. Utilizing the elevated B4 will support opening a new avenue for identifying the mechanism for generation of, and additional molecular markers for, pathogenic cells.
Chorionic Villus Sampling, Early Amniocentesis, and Termination of Pregnancy Without Diagnostic Testing: Comparison of Fetal Risk Following Positive Non-invasive Prenatal Testing
Authors: Zelig Craig M. , Knutzen Dana M. , Ennen Christopher S. , Dolinsky Brad M. , Napolitano Peter G. 
Published: October 2016

(Abstracted from J Obstet Gynaecol Can 2016;38(5):441–445)
The accuracy of screening tests for fetal aneuploidy such as noninvasive prenatal testing based on cell-free DNA (cfDNA) techniques has improved remarkably over the past 40 years, thereby decreasing the likelihood of false-positive detection rates. Diagnostic tests such as early amniocentesis (EA) and chorionic villus sampling (CVS) have been recommended following positive first-trimester screening tests for confirmation.
Outcomes of Nonoperative Pediatric Medial Humeral Epicondyle Fractures With and Without Associated Elbow Dislocation
Authors: Knapik Derrick M. , Fausett Cameron L. , Gilmore Allison , Liu Raymond W. 
Published: October 2016

Background:
Medial epicondyle fractures may occur in isolation or with associated elbow dislocation. In the absence of open fracture or fragment incarceration, nonoperative management with immobilization has been shown to result in generally successfully outcomes comparable with those reported after surgical fixation. However, no comparative investigation has assessed outcomes after nonoperative treatment based on the presence or absence of elbow dislocation.

Methods:
A systematic review was conducted investigating all studies in the literature reporting nonoperative outcomes for isolated medial epicondyle fractures and fracture-dislocations. Databases included in this review were PubMed, Biosis Preview, SPORTDiscus, PEDro, and EMBASE. We sought to evaluate results related to the incidence and outcomes of bony nonunion and the incidence of elbow stiffness, pain, ulnar neuropathy, cubitus valgus deformity, and laxity between isolated fractures of the medial epicondyle and fracture-dislocations.

Results:
Review of the literature yielded 7 studied meeting appropriate inclusion and exclusion criteria, comprising 81 total patients (n=42 patients with fracture-dislocations, n=39 patients with isolated fracture). Bony nonunion occurred in 69% (n=29) of patients with fracture-dislocation versus 49% (n=19) with isolated fractures (P=0.11); however, both groups had minimal clinical or functional disabilities at final follow-up. Decreased elbow flexion and extension range of motion were significantly more frequent after fracture-dislocation than isolated fractures [43% (n=18) vs. 15% (n=6), respectively, P=0.01], while patients rarely demonstrated pain, ulnar neuropathy, or deformity in the presence or absence of dislocation.

Conclusions:
In the absence of absolute surgical indication, nonoperative management of isolated medical epicondyle fractures with or without concomitant elbow dislocation seems to be successful with few long-term complications leading to functional disability. However, increased rates of nonunion, elbow stiffness, and elbow laxity may occur with fracture-dislocations, and merit further study with validated functional outcome scores. Further comparative studies are necessary to determine the true indications and outcomes in nonoperatively managed medial epicondyle fractures.

Level of Evidence:
Level II—systematic review of level-II or level-I studies with inconsistent results.