bluuebunny/crossref_metadata_2025_split huggingface dataset:
High expression of SOX30 is associated with favorable survival in human lung adenocarcinoma
Authors: Han Fei , Liu Wenbin , Xiao Hualiang , Dong Yan , Sun Lei , Mao Chengyi , Yin Li , Jiang Xiao , Ao Lin , Cui Zhihong , Cao Jia , Liu Jinyi 
Published: September 2015

AbstractIn our previous study, we had identified SOX30 as a novel tumor suppressor that acts through direct regulation of p53 transcription in human lung cancer. Here, we sought to determine the clinical relevance of SOX30 expression in a series of surgically-resected non-small cell lung cancer (NSCLC) patients. Analysis of SOX30 expression and clinico-pathologic features reveal a significant correlation of SOX30 expression with histological type (n = 220, P = 0.008) and clinical stage (n = 220, P = 0.024). Kaplan-Meier analysis indicates an association of high SOX30 expression with better prognosis in NSCLC patients (n = 220, P = 0.007). Via multivariate Cox-regression analysis, SOX30 expression is revealed to be an independent prognostic factor for overall survival (OS) of NSCLC patients (n = 220, P = 0.014, hazard ratio (HR) = 0.816). In particular, SOX30 is a favorable and independent prognostic factor in one main subtype of NSCLC, lung adenocarcinoma (ADC) patients (n = 150, P = 0.000, HR = 0.405), but not in another main subtype of NSCLC, squamous cell carcinoma patients. Furthermore, high expression of SOX30 represents a favorable and independent factor for the prognosis of ADC patients at clinical stage II (P = 0.013), with positive lymph node (P = 0.003), at histological grade 2 (P = 0.000) or grade 3 (P = 0.025). In summary, SOX30 expression represents an important prognostic factor for survival time in ADC patients.
Diverse lattice dynamics in ternary Cu-Sb-Se compounds
Authors: Qiu Wujie , Wu Lihua , Ke Xuezhi , Yang Jihui , Zhang Wenqing 
Published: September 2015

AbstractSearching and designing materials with extremely low lattice thermal conductivity (LTC) has attracted considerable attention in material sciences. Here we systematically demonstrate the diverse lattice dynamics of the ternary Cu-Sb-Se compounds due to the different chemical-bond environments. For Cu3SbSe4 and CuSbSe2, the chemical bond strength is nearly equally distributed in crystalline bulk and all the atoms are constrained to be around their equilibrium positions. Their thermal transport behaviors are well interpreted by the perturbative phonon-phonon interactions. While for Cu3SbSe3 with obvious chemical-bond hierarchy, one type of atoms is weakly bonded with surrounding atoms, which leads the structure to the part-crystalline state. The part-crystalline state makes a great contribution to the reduction of thermal conductivity that can only be effectively described by including a rattling-like scattering process in addition to the perturbative method. Current results may inspire new approaches to designing materials with low lattice thermal conductivities for high-performance thermoelectric conversion and thermal barrier coatings.
Multiplexed In-cell Immunoassay for Same-sample Protein Expression Profiling
Authors: Shang Jing , Zrazhevskiy Pavel , Postupna Nadia , Keene C. Dirk , Montine Thomas J. , Gao Xiaohu 
Published: September 2015

AbstractIn-cell immunoassays have become a valuable tool for protein expression analysis complementary to established assay formats. However, comprehensive molecular characterization of individual specimens has proven challenging and impractical due to, in part, a singleplex nature of reporter enzymes and technical complexity of alternative assay formats. Herein, we describe a simple and robust methodology for multiplexed protein expression profiling on the same intact specimen, employing a well-characterized enzyme alkaline phosphatase for accurate quantification of all targets of interest, while overcoming fundamental limitations of enzyme-based techniques by implementing the DNA-programmed release mechanism for segregation of sub-sets of target-bound reporters. In essence, this methodology converts same-sample multi-target labeling into a set of isolated singleplex measurements performed in a parallel self-consistent fashion. For a proof-of-principle, multiplexed detection of three model proteins was demonstrated on cultured HeLa cells and two clinically-relevant markers of dementia, β-amyloid and PHF-tau, were profiled in formalin-fixed paraffin embedded brain tissue sections, uncovering correlated increase in abundance of both markers in the “Alzheimer’s disease” cohort. Featuring an analytically powerful yet technically simple and robust methodology, multiplexed in-cell immunoassay is expected to enable insightful same-sample protein profiling studies and become broadly adopted in biomedical research and clinical diagnostics.
Phosphoproteomic profiling of tumor tissues identifies HSP27 Ser82 phosphorylation as a robust marker of early ischemia
Authors: Zahari Muhammad Saddiq , Wu Xinyan , Pinto Sneha M. , Nirujogi Raja Sekhar , Kim Min-Sik , Fetics Barry , Philip Mathew , Barnes Sheri R. , Godfrey Beverly , Gabrielson Edward , Nevo Erez , Pandey Akhilesh 
Published: September 2015

AbstractDelays between tissue collection and tissue fixation result in ischemia and ischemia-associated changes in protein phosphorylation levels, which can misguide the examination of signaling pathway status. To identify a biomarker that serves as a reliable indicator of ischemic changes that tumor tissues undergo, we subjected harvested xenograft tumors to room temperature for 0, 2, 10 and 30 minutes before freezing in liquid nitrogen. Multiplex TMT-labeling was conducted to achieve precise quantitation, followed by TiO2 phosphopeptide enrichment and high resolution mass spectrometry profiling. LC-MS/MS analyses revealed phosphorylation level changes of a number of phosphosites in the ischemic samples. The phosphorylation of one of these sites, S82 of the heat shock protein 27 kDa (HSP27), was especially abundant and consistently upregulated in tissues with delays in freezing as short as 2 minutes. In order to eliminate effects of ischemia, we employed a novel cryogenic biopsy device which begins freezing tissues in situ before they are excised. Using this device, we showed that the upregulation of phosphorylation of S82 on HSP27 was abrogated. We thus demonstrate that our cryogenic biopsy device can eliminate ischemia-induced phosphoproteome alterations and measurements of S82 on HSP27 can be used as a robust marker of ischemia in tissues.
Frankincense and myrrh suppress inflammation via regulation of the metabolic profiling and the MAPK signaling pathway
Authors: Su Shulan , Duan Jinao , Chen Ting , Huang Xiaochen , Shang Erxin , Yu Li , Wei Kaifeng , Zhu Yue , Guo Jianming , Guo Sheng , Liu Pei , Qian Dawei , Tang Yuping 
Published: September 2015

AbstractFrankincense and myrrh are highly effective in treatment of inflammatory diseases, but lacking of the therapy mechanisms. We undertook this study to evaluate the effects on Adjuvant-induced Arthritis (AIA) rats and to explore the underlying mechanisms by analyzing the metabolic profiling and signaling pathway evaluated by expression of inflammatory cytokines, c-jun and c-fos and corresponding phosphorylation levels. The results stated the elevated expression levels of TNFα, PGE2, IL-2, NO and MDA in serum and swelling paw of AIA rats were significantly decreased after treatment, which exerted more remarkable inhibitive effects of combined therapy. The metabolic profiling of plasma and urine were clearly improved and twenty-one potential biomarkers were identified. Moreover, the inhibited effects of five bioactive components on cytokine transcription in PHA stimulated-PBMC showed the MAPK pathway might account for this phenomenon with considerable reduction in phosphorylated forms of all the three MAPK (ERK1/2, p38 and JNK) and down regulation of c-jun and c-fos.
Dissolution-and-reduction CVD synthesis of few-layer graphene on ultra-thin nickel film lifted off for mode-locking fiber lasers
Authors: Peng Kaung-Jay , Lin Yung-Hsiang , Wu Chung-Lun , Lin Sheng-Fong , Yang Chun-Yu , Lin Shih-Meng , Tsai Din-Ping , Lin Gong-Ru 
Published: September 2015

AbstractThe in-situ dissolution-and-reduction CVD synthesized few-layer graphene on ultra-thin nickel catalyst film is demonstrated at temperature as low as 550 °C, which can be employed to form transmission-type or reflection-type saturable absorber (SA) for mode-locking the erbium-doped fiber lasers (EDFLs). With transmission-type graphene SA, the EDFL shortens its pulsewidth from 483 to 441 fs and broadens its spectral linewidth from 4.2 to 6.1 nm with enlarging the pumping current from 200 to 900 mA. In contrast, the reflection-type SA only compresses the pulsewidth from 875 to 796 fs with corresponding spectral linewidth broadened from 2.2 to 3.3 nm. The reflection-type graphene mode-locker increases twice of its equivalent layer number to cause more insertion loss than the transmission-type one. Nevertheless, the reflection-type based saturable absorber system can generate stabilized soliton-like pulse easier than that of transmission-type system, because the nonlinearity induced self-amplitude modulation depth is simultaneously enlarged when passing through the graphene twice under the retro-reflector design.
Thermodynamics and signatures of criticality in a network of neurons
Authors: Tkačik Gašper , Mora Thierry , Marre Olivier , Amodei Dario , Palmer Stephanie E. , Berry Michael J. , Bialek William 
Published: September 2015

Significance
The activity of a brain—or even a small region of a brain devoted to a particular task—cannot be just the summed activity of many independent neurons. Here we use methods from statistical physics to describe the collective activity in the retina as it responds to complex inputs such as those encountered in the natural environment. We find that the distribution of messages that the retina sends to the brain is very special, mathematically equivalent to the behavior of a material near a critical point in its phase diagram.
Using Ancient Samples in Projection Analysis
Authors: Yang Melinda A. , Slatkin Montgomery 
Published: September 2015

AbstractProjection analysis is a useful tool for understanding the relationship of two populations. It compares a test genome to a set of genomes from a reference population. The projection’s shape depends on the historical relationship of the test genome’s population to the reference population. Here, we explore the effects on the projection when ancient samples are included in the analysis. First, we conduct a series of simulations in which the ancient sample is directly ancestral to a present-day population (one-population model) or the ancient sample is ancestral to a sister population that diverged before the time of sampling (two-population model). We find that there are characteristic differences between the projections for the one-population and two-population models, which indicate that the projection can be used to determine whether a test genome is directly ancestral to a present day population or not. Second, we compute projections for several published ancient genomes. We compare three Neanderthals, the Denisovan and three ancient human genomes to European, Han Chinese and Yoruba reference panels. We use a previously constructed demographic model and insert these seven ancient genomes and assess how well the observed projections are recovered.
Species Tailoured Contribution of Volumetric Growth and Tissue Convergence to Posterior Body Elongation in Vertebrates
Authors: Steventon Ben , Duarte Fernando , Lagadec Ronan , Mazan Sylvie , Nicolas Jean-François , Hirsinger Estelle 
Published: September 2015

AbstractAxial elongation is a widespread mechanism propelling the generation of the metazoan body plan. A widely accepted model is that of posterior growth, where new tissue is continually added from the posterior unsegmented tip of the body axis. A key question is whether or not such a posterior growth zone generates sufficient additional tissue volume to generate elongation of the body axis, and the degree to which this is balanced with tissue convergence and/or growth in already segmented regions of the body axis. We applied a multi-scalar morphometric analysis during posterior axis elongation in zebrafish. Importantly, by labelling of specific regions/tissues and tracking their deformation, we observed that the unsegmented region does not generate additional tissue volume at the caudal tip. Instead, it contributes to axis elongation by extensive tissue deformation at constant volume. We show that volumetric growth occurs in the segmented portion of the axis and can be attributed to an increase in the size and length of the spinal cord and notochord. FGF inhibition blocks tissue convergence within the tailbud and unsegmented region rather than affecting volumetric growth, showing that a conserved molecular mechanism can control convergent morphogenesis, even if by different cell behaviours. Finally, a comparative morphometric analysis in lamprey, dogfish, zebrafish and mouse reveal a differential contribution of volumetric growth that is linked to a switch between external and internal modes of development. We propose that posterior growth is not a conserved mechanism to drive axis elongation in vertebrates. It is instead associated with an overall increase in growth characteristic of internally developing embryos that undergo embryonic development concomitantly with an increase in energy supply from the female parent.
Finance-seeking behaviour and outcomes for small- and medium-sized enterprises
Authors: Xiang Dong , Worthington Andrew 
Published: September 2015

Purpose
– Model finance-seeking behaviour and outcomes by Australian small- and medium-sized enterprises (SMEs) using firm-level panel data. The paper aims to discuss this issue.

Design/methodology/approach
– Using firm-level three-year panel data for more than 2,000 SMEs from the Business Longitudinal Database compiled by the Australian Bureau of Statistics, the authors estimate separate models for the seeking of finance (debt and/or equity) and the outcomes of finance seeking (successful or unsuccessful). Key explanatory variables include declared business focus (on financial, cost, operational, quality, innovation, and human resource measures), presence of business plans and other documentation related to successful finance seeking, innovation, indicators for family and foreign-owned businesses, and profitability. Control variables include sales, the number of employees, length of operations, export and import activity, government financial assistance, and industry classification.

Findings
– Business objectives together with a large number of firm-level characteristics, including firm age, size, industry and sales, profits, growth and exports, significantly affect both finance-seeking behaviour and outcomes. The authors find evidence that the pecking-order and agency cost theories of capital structure at least partly explain the financial behaviour of Australian SMEs.

Research limitations/implications
– Several of the responses in the underlying survey data are qualitative so the authors are unable to assess how the strength of these relationships varies by the levels of sales and profitability.

Practical implications
– The findings show that business objectives significantly affect SME finance-seeking decisions and outcomes. SMEs that focus on profitability or growth have a strong willingness to seek additional finance; in comparison, SMEs that focus on the quality of their products or services are less likely to apply for additional finance. As only half of the SMEs in the sample considered profitability or growth to be a major business focus, core business objectives greatly affect SME financing decisions. Further, pecking-order theory not trade-off theory better explains the financial behaviour of SMEs, yielding evidence that SMEs continue to face financial constraints when pursuing growth. Some evidence also of agency cost theory in the positive effects of family ownership on debt seeking.

Originality/value
– One of very few studies to examine finance seeking by SMEs, especially in Australia. Further, only study known to include declared business strategy, presence of business plans and other finance-related documentation and innovation in addition to the usual focus on growth and profitability to explain financing behaviour. Very large panel of longitudinal data used to explain financial decision making over time.
The role of documents in the U.S.
Authors: Choksy Carol E.B. 
Published: September 2015

Purpose
– How documents pour l’action organize and bind US society. The paper aims to discuss this issue.

Design/methodology/approach
– Manuel Zacklad’s concept of documents pour l’action are examined as highly embedded social objects using cultural anthropology and the robotics concept of stigmergy. Pragmatic literacy as opposed to scholarly or recreational literacy is used to inform the discussion.

Findings
–Documents pour l’action are more than memory devices that explain or describe. They function within highly structured social contexts to organize and bind US society.

Research limitations/implications
– Research on documents has been limited to their role as memory devices. Documents pour l’action are deeply embedded social objects. A new focus on pragmatic literacy could create many breakthroughs in the understanding of documents generally.

Originality/value
– This is the first study of the role of documents as a binding force in a society, particularly with an understanding of how they can be understood through stigmergy.
Is it money laundering
Authors: Huang Zeyu 
Published: September 2015

Purpose– This paper aims to, inspired by the media report concerning the misuse of China UnionPay cards, examine the elements of money laundering offence in Macau SAR through a case study, which also calls for the mutual legal assistance between mainland China and Macau.Design/methodology/approach– This paper provides the case study of China UnionPay scandal in accordance with Macau law and comparative analysis of legislation and regulations in mainland China and Macau. Relevant suggestions are presented.Findings– Despite the lack of actually discovered money laundering cases involving China UnionPay, the methods of smuggling money from mainland China across the border to Macau implied a “risk exposure” of Anti-Money Laundering (AML) mechanism of Macau SAR. The risk of money laundering therein makes it necessary to establish and enforce the inter-regional mutual legal assistance for AML. Sensitive issues thereof shall be handledipso jureand reasonably.Practical implications– This paper is a good attempt to touch upon the long-term puzzle in inter-regional mutual legal assistance in Greater China. The specific case study may act as an ice-breaker about how to develop inter-regional mutual legal assistance in specific criminal matters.Originality/value– This paper, first, reacts to the legal problem caused by China UnionPay scandal, which also will be beneficial for the legal debates and policy-making upon the establishment and enforcement of mutual legal assistance in Greater China.
Clickjacking: a study on popular websites in India
Authors: Dharmavaram Vijaya Geeta 
Published: September 2015

Purpose
– The purpose of the paper is to assess the precautionary measures adopted by the popular websites in India, and, thus, find out how vulnerable the Indian Web users are to this form of attack. Today almost all work is done through the Internet, including monetary transactions. This holds true even for developing countries like India, thus making secure browsing a necessity. However, an attack called “clickjacking” can help Internet scammers to carry out fraudulent tasks. Even though researchers had proposed different techniques to face this threat, it remains a question on how effectively they are deployed in practice.

Design/methodology/approach
– To carry out the study, top 100 Indian and global websites in India were identified and were divided into static and dynamic websites based on the level of interaction they offer to the users. These websites were checked to see whether they offer any basic protection against clickjacking and, if so, which defence technique is used. A comparison between Indian websites and global websites is done to see where India stands in terms of providing security.

Findings
– The results show that 86 per cent of Indian websites offer no protection against clickjacking, in contrast to 51 per cent of global websites. It is also observed that in the case of dynamic websites, only 18 per cent of Indian websites offer some form of protection, when compared to 63 per cent of global websites. This is quite alarming, as dynamic websites such as social networking and banking websites are the likely candidates for clickjacking, resulting in serious consequences such as identity and monetary theft.

Originality/value
– In this paper, vulnerability of Indian websites to clickjacking is presented, which was not addressed before. This will help in creating awareness among the Indian Web developers as well as the general public, so that precautionary measures can be adopted.
Atypical pemphigus with immunoglobulin G autoantibodies against desmoglein 3 and desmocollin 3
Authors: Kamiya Koji , Aoyama Yumi , Wakashima Chie , Kudo Tomoko , Nakajima Kimiko , Sano Shigetoshi , Ishii Norito , Teye Kwesi , Hashimoto Takashi , Iwatsuki Keiji , Tokura Yoshiki 
Published: September 2015

AbstractIn patients with pemphigus vulgaris (PV), pathogenic immunoglobulin (Ig)G antibodies are most commonly directed against desmoglein 3 (Dsg3). It has recently been reported, however, that IgG anti‐desmocollin 3 (Dsc3) antibodies are detected in some cases of pemphigus with or without IgG anti‐Dsg3 antibodies. We present a case of pemphigus with IgG antibodies against Dsg3 and Dsc3. Subsequent studies showed that the cell surface distribution pattern of Dsc3 but not Dsg3 was altered, suggesting that suprabasal acantholytic blisters were induced by IgG anti‐Dsc3 antibodies rather than IgG anti‐Dsg3 antibodies. Our case suggests that anti‐Dsc3 antibodies may be pathogenic in cases positive for the dual cadherin autoantibodies.
Macronutrient balance mediates the growth of sexually selected weapons but not genitalia in male broad‐horned beetles
Authors: House Clarissa M. , Jensen Kim , Rapkin James , Lane Sarah , Okada Kensuke , Hosken David J. , Hunt John 
Published: September 2015

Summary

Condition is defined as the pool of resources available to an individual that can be allocated to fitness‐enhancing traits. Consequently, condition could influence developmental trade‐offs if any occur. Although many studies have manipulated diet to demonstrate condition‐dependent trait expression, few studies have determined the contribution of specific nutrients to condition or trade‐offs.

We used nutritional geometry to quantify the effects of dietary protein and carbohydrate content on larval performance and the development of adult morphology including body size as well as a primary and secondary sexually selected trait in male broad‐horned beetles, Gnatocerus cornutus.

We found that offspring survival, development rate and morphological traits were highly affected by dietary carbohydrate content and to a lesser extent by protein content and that all traits were maximized at a protein‐to‐carbohydrate ratio around 1:2. The absolute size of a secondary sexual character, the mandibles, had a heightened response to the increased availability and ratio of both macronutrients. Male genitalia, in contrast, were relatively insensitive to the increased availability of macronutrients.

Overall, while nutrition influenced trait expression, the nutritional requirements of development rate and morphological traits were largely the same and resource acquisition seems to implement only weak trade‐offs in this species.

This finding contrasts with some resource constraint predictions, as beetles seem able to simultaneously meet the nutritional requirements of most traits.