T Oligo-Primed Polymerase Chain Reaction (TOP-PCR): A Robust Method for the Amplification of Minute DNA Fragments in Body Fluids.

Body fluid DNA sequencing is a powerful noninvasive approach for the diagnosis of genetic defects, infectious agents and diseases. The success relies on the quantity and quality of the DNA samples. However, numerous clinical samples are either at low quantity or of poor quality due to various reasons. To overcome these problems, we have developed T oligo-primed polymerase chain reaction (TOP-PCR) for full-length nonselective amplification of minute quantity of DNA fragments. TOP-PCR adopts homogeneous "half adaptor" (HA), generated by annealing P oligo (carrying a phosphate group at the 5' end) and T oligo (carrying a T-tail at the 3' end), for efficient ligation to target DNA and subsequent PCR amplification primed by the T oligo alone. Using DNA samples from body fluids, we demonstrate that TOP-PCR recovers minute DNA fragments and maintains the DNA size profile, while enhancing the major molecular populations. Our results also showed that TOP-PCR is a superior method for detecting apoptosis and outperforms the method adopted by Illumina for DNA amplification

The integration of storm water flooding and thermal stress potential in Tainan (Taiwan) and Groningen (Netherlands)

Stormwater flooding and thermal stresses of citizens are two important phenomena for most of the dense urban area. Due to the climate change, these two phenomena will occur more frequently and cause serious problems. Therefore, the sectors for public health and disaster management should be able to assess the vulnerability to stormwater flooding and thermal stress. To achieve this goal, two cities in different climate regions and with different urban context have been selected as the pilot areas, i.eY., Tainan, Taiwan and Groningen, Netherlands. Stormwater flooding and thermal stress maps will be produced for both cities for further comparison. The flooding map indicates vulnerable low lying areas, where the thermal stress map indicates high Physiological Equivalent Temperature (PET) values (thermal comfort) in open areas without shading. The combined map indicates the problem areas of flooding and thermal stress and can be used by urban planners and other stakeholders to improve the living environment

Surface Metallization of Polyimide as a Photoanode Substratefor Rear-Illuminated Dye-Sensitized Solar Cells

Plastic film is promising as a photoanode substrate of dye-sensitized solar cell (DSSC) for flexible applications, while a lowtemperaturesintering process is generally adopted for the TiO2 mesoporous film due to unstable thermal property of general plastics.This study demonstrates that typical high-temperature TiO2 sintering can be adopted for preparing the photoanode when using asurface-metallized polyimide (PI) film. A Sn/Ni bi-layer is formed on a PI film via a chemical process as the conductive layer. TheSn/Ni-coated PI photoanode can withstand high-temperature TiO2 sintering at a peak temperature of 430◦C for 30 min withoutsignificant visual deformation due to high thermal stability of PI and strength reinforcement caused by surface metallization. TheDSSC employing the Sn/Ni-coated PI film as the photoanode substrate reaches an energy conversion efficiency of 3.44% under1 sun rear-side illumination

Critical Lens-Power Structure in Animal-Assisted Therapy

Abstract This article is about my journey in animal-assisted therapy (AAT). I use the critical paradigm to explore how AAT is positioned within the institution, scholarship, and mental health practice as well as the role of language and gender. Through this exploration, I have become more aware of who I am in this academic setting and social structure. The purpose of this study is to help raise the awareness of educators and practitioners regarding academic and mental health practice and the role that each member of the mental health profession plays – consciously or unconsciously – in oppressing the practice of AAT. The more mental health professionals are aware of how they are molded by society and the institution of mental health practice, the more they can take action to make a change toward more equitable, effective practice

Validation of the Action Research Arm Test using item response theory in patients after stroke

Objective: To validate the unidimensionality of the Action Research Arm Test (ARAT) using Mokken analysis and to examine whether scores of the ARAT can be transformed into interval scores using Rasch analysis. Subjects and methods: A total of 351 patients with stroke were recruited from 5 rehabilitation departments located in 4 regions of Taiwan. The 19-item ARAT was administered to all the subjects by a physical therapist. The data were analysed using item response theory by non-parametric Mokken analysis followed by Rasch analysis. Results: The results supported a unidimensional scale of the 19-item ARAT by Mokken analysis, with the scalability coefficient H = 0.95. Except for the item pinch ball bearing 3rd finger and thumb'', the remaining 18 items have a consistently hierarchical order along the upper extremity function's continuum. In contrast, the Rasch analysis, with a stepwise deletion of misfit items, showed that only 4 items (grasp ball'', grasp block 5 cm(3)'', grasp block 2.5 cm(3)'', and grip tube 1 cm(3)'') fit the Rasch rating scale model's expectations. Conclusion: Our findings indicated that the 19-item ARAT constituted a unidimensional construct measuring upper extremity function in stroke patients. However, the results did not support the premise that the raw sum scores of the ARAT can be transformed into interval Rasch scores. Thus, the raw sum scores of the ARAT can provide information only about order of patients on their upper extremity functional abilities, but not represent each patient's exact functioning

Identification of regulatory SNPs associated with genetic modifications in lung adenocarcinoma

BACKGROUND: Although much research effort has been devoted to elucidating lung cancer, the molecular mechanism of tumorigenesis still remains unclear. A major challenge to improve the understanding of lung cancer is the difficulty of identifying reproducible differentially expressed genes across independent studies, due to their low consistency. To enhance the reproducibility of the findings, an integrated analysis was performed to identify regulatory SNPs. Thirty-two pairs of tumor and adjacent normal lung tissue specimens were analyzed using Affymetrix U133plus2.0, Affymetrix SNP 6.0, and Illumina Infinium Methylation microarrays. Copy number variations (CNVs) and methylation alterations were analyzed and paired t-tests were used to identify differentially expressed genes. RESULTS: A total of 505 differentially expressed genes were identified, and their dysregulated patterns moderately correlated with CNVs and methylation alterations based on the hierarchical clustering analysis. Subsequently, three statistical approaches were performed to explore regulatory SNPs, which revealed that the genotypes of 551 and 66 SNPs were associated with CNV and changes in methylation, respectively. Among them, downstream transcriptional dysregulation was observed in 9 SNPs for CNVs and 4 SNPs for methylation alterations. CONCLUSIONS: In summary, these identified SNPs concurrently showed the same direction of gene expression changes with genetic modifications, suggesting their pivotal roles in the genome for non-smoking women with lung adenocarcinoma. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13104-015-1053-8) contains supplementary material, which is available to authorized users

Contrastive Multiple Correspondence Analysis (cMCA): Using Contrastive Learning to Identify Latent Subgroups in Political Parties

Scaling methods have long been utilized to simplify and cluster high-dimensional data. However, the latent spaces derived from these methods are sometimes uninformative or unable to identify significant differences in the data. To tackle this common issue, we adopt an emerging analysis approach called contrastive learning. We contribute to this emerging field by extending its ideas to multiple correspondence analysis (MCA) in order to enable an analysis of data often encountered by social scientists -- namely binary, ordinal, and nominal variables. We demonstrate the utility of contrastive MCA (cMCA) by analyzing three different surveys of voters in Europe, Japan, and the United States. Our results suggest that, first, cMCA can identify substantively important dimensions and divisions among (sub)groups that are overlooked by traditional methods; second, for certain cases, cMCA can still derive latent traits that generalize across and apply to multiple groups in the dataset; finally, when data is high-dimensional and unstructured, cMCA provides objective heuristics, above and beyond the standard results, enabling more complex subgroup analysis.Comment: Both authors contributed equally to the paper and listed alphabetically. This manuscript is currently under revie

Serum markers of CYFRA 21-1 and C-reactive proteins in oral squamous cell carcinoma

BACKGROUND: CYFRA 21-1 (cytokeratin 19 fragment) and C-reactive proteins (CRP) were separately reported to be associated with prognosis of head and neck squamous cell carcinoma. The combined roles of CYFRA 21-1 and CRP levels were rarely investigated in oral squamous cell carcinoma (OSCC). The purpose of the present study was to analyze the relationship between preoperative levels of both CYFRA 21-1 and CRP, with clinicopathological factors and prognosis in OSCC patients. METHODS: A retrospective study was performed on 130 OSCC patients between December 2010 and June 2013. Their serum CYFRA 21-1 and CRP levels were measured preoperatively. RESULTS: CYFRA 21-1 level of ≥3.3 ng/mL and CRP level of ≥5.0 mg/L were significantly associated with pathological tumor status (P < 0.001), tumor depth (>10 vs. ≤10 mm, P = 0.001), bone invasion (P = 0.001), skin invasion (P = 0.006), pathologic nodal metastasis (P = 0.012), and disease-free survival (P = 0.009). Higher CYPFRA 21-1 and CRP levels were also associated with higher risks of distant metastasis (log-rank test, P = 0.013, (HR [95 % CI]) 1.692 [1.097–2.414]). CONCLUSIONS: Preoperative CYFRA 21-1 and CRP levels are probable candidates as biomarkers for risk stratification in OSCC