Filters








14,074 Hits in 2.8 sec

Selection of DNA aptamers that bind to four organophosphorus pesticides

Li Wang, Xianjin Liu, Qiang Zhang, Cunzheng Zhang, Yuan Liu, Kang Tu, Jian Tu
2012 Biotechnology Letters  
Single-stranded DNA (ssDNA) aptamers against four organophosphorus pesticides (phorate, profenofos, isocarbophos and omethoate) were simultaneously isolated from an immobilized random ssDNA library by systematic evolution of ligands by exponential enrichment (SELEX) technique. After 12 rounds of in vitro selection, five ssDNA aptamer candidates were selected and their binding affinities were identified by a novel method using a molecular beacon. Two of the five ssDNA sequences, SS2-55 and
more » ... , demonstrated higher affinities and specificities to the four organophosphorus pesticides. They were defined as broad-spectrum aptamers binding to four different targets and their simulated secondary structures showed highly distinct features with typical stem and loop structures. The dissociation constant of SS2-55 and SS4-54 binding to the four organophosphorus pesticides ranged from 0.8 to 2.5 lM. These aptamers offered application potential in the analysis and/or neutralization of the residues of the four organophosphorus pesticides.
doi:10.1007/s10529-012-0850-6 pmid:22261866 fatcat:h6jwrzrmcfaa5cohuflchc2fsi

Actor-Action Semantic Segmentation with Region Masks [article]

Kang Dang, Chunluan Zhou, Zhigang Tu, Michael Hoy, Justin Dauwels, Junsong Yuan
2018 arXiv   pre-print
In this paper, we study the actor-action semantic segmentation problem, which requires joint labeling of both actor and action categories in video frames. One major challenge for this task is that when an actor performs an action, different body parts of the actor provide different types of cues for the action category and may receive inconsistent action labeling when they are labeled independently. To address this issue, we propose an end-to-end region-based actor-action segmentation approach
more » ... hich relies on region masks from an instance segmentation algorithm. Our main novelty is to avoid labeling pixels in a region mask independently - instead we assign a single action label to these pixels to achieve consistent action labeling. When a pixel belongs to multiple region masks, max pooling is applied to resolve labeling conflicts. Our approach uses a two-stream network as the front-end (which learns features capturing both appearance and motion information), and uses two region-based segmentation networks as the back-end (which takes the fused features from the two-stream network as the input and predicts actor-action labeling). Experiments on the A2D dataset demonstrate that both the region-based segmentation strategy and the fused features from the two-stream network contribute to the performance improvements. The proposed approach outperforms the state-of-the-art results by more than 8% in mean class accuracy, and more than 5% in mean class IOU, which validates its effectiveness.
arXiv:1807.08430v1 fatcat:yqwnno3dpzgmpakcwaxdot7wwa

How to Find Actionable Static Analysis Warnings [article]

Rahul Yedida, Hong Jin Kang, Huy Tu, Xueqi Yang, David Lo, Tim Menzies
2022 arXiv   pre-print
[54] and Kang et al.  ...  Issues in Prior Results: Kang et al., 2022 Subsequently, Kang et al. [25] replicated the Yang et al.  ... 
arXiv:2205.10504v1 fatcat:7y57imv5lfbwziqmzs33vazjze

Testing the relation between percentage change and baseline value

Yu-Kang Tu
2016 Scientific Reports  
Testing the relation between percentage change and baseline value has been controversial, but it is not clear why this practice may yield spurious results. In this paper, we first explained why the usual testing of the relation between percentage change and baseline value is inappropriate and then demonstrated how the appropriate null hypothesis could be formulated. We also proposed a simple procedure for testing the appropriate null hypothesis based on the assumption that when there is no
more » ... ion between percentage change and baseline value, the coefficients of variation for repeated measurements of a random variable should remain unchanged. Two examples were used to demonstrate how the usual testing gave rise to misleading results, whilst results from our simple test were in general consistent with those from simulations. We also undertook simulations to investigate the impact of measurement errors on the performance of the proposed test. Results suggested the type-I error rates increased with the magnitude of measurement errors, whilst the statistical power to detect a genuine relation decreased. The usual approach to testing the relation between percentage change and baseline value tended to yield misleading results and should be avoided.
doi:10.1038/srep23247 pmid:26979481 pmcid:PMC4793189 fatcat:quzmnddbzfgjzktnokfeejazx4

Characterization of Geranium (Pelargonium graveolens) Chloroplast EF-Tu cDNA

Chul Joo Kang, Min Goo Lee, Young Sil Cho, Joong Won Lee, Yoon Jung Kyung, Jeong Sheop Shin, Eun-Soo Kim, Jeong-Kook Kim
2000 Molecules and Cells  
The predicted molecular weight of the mature geranium chloroplast EF-Tu protein was about 45,000 and its amino acid sequence identity with the chloroplast EF-Tu proteins of tobacco, pea, Arabidopsis, rice  ...  A geranium (Pelargonium graveolens) chloroplast translational elongation factor EF-Tu (tufA) cDNA was isolated.  ...  Crystal structure analysis of bacterial EF-Tu showed that EF-Tu folded into three domains (Kjeldgaard and Nyborg, 1992; Kjeldgaard et al., 1993) .  ... 
doi:10.1007/s10059-000-0579-2 fatcat:jzu5s4vb45ep3jy5a53t2lewi4

Characterization of Geranium ( Pelargonium graveolens) Chloroplast EF-Tu cDNA

Chul Joo Kang, Min Goo Lee, Young Sil Cho, Joong Won Lee, Yoon Jung Kyung, Jeong Sheop Shin, Eun-Soo Kim, Jeong-Kook Kim
2000 Molecules and Cells  
The predicted molecular weight of the mature geranium chloroplast EF-Tu protein was about 45,000 and its amino acid sequence identity with the chloroplast EF-Tu proteins of tobacco, pea, Arabidopsis, rice  ...  A geranium (Pelargonium graveolens) chloroplast translational elongation factor EF-Tu (tufA) cDNA was isolated.  ...  Crystal structure analysis of bacterial EF-Tu showed that EF-Tu folded into three domains (Kjeldgaard and Nyborg, 1992; Kjeldgaard et al., 1993) .  ... 
doi:10.1007/s100590000015 pmid:11101151 fatcat:qayh7glrp5ho5bsdyhf3vlwfay

Horo-convex hypersurfaces with prescribed shifted Gauss curvatures in H^n+1 [article]

Li Chen, Kang Xiao, Qiang Tu
2020 arXiv   pre-print
In this paper, we consider prescribed shifted Gauss curvature equations for horo-convex hypersurfaces in H^n+1. Under some sufficient condition, we obtain an existence result by the standard degree theory based on the a prior estimates for the solutions to the equations. Different from the prescribed Weingarten curvature problem in space forms, we do not impose a sign condition for radial derivative of the functions in the right-hand side of the equations to prove the existence due to the horo-covexity of hypersurfaces in H^n+1.
arXiv:2007.14233v1 fatcat:dn42bykvezdndkkrfes6j3ah7a

MEGO: gene functional module expression based on gene ontology

Kang Tu, Hui Yu, Mingzhu Zhu
2005 BioTechniques  
GO categorizes gene function in three aspects: biological process, molecular RESEARCH REPORT MEGO: gene functional module expression based on gene ontology Kang Tu, Hui Yu, and Mingzhu Zhu BioTechniques  ... 
doi:10.2144/05382rr04 pmid:15727134 fatcat:vfkd555axrc45bncyz7ezfpvme

Esthetic results of immediate implant placement in extraction sockets with intact versus deficient walls

Kang-Shuo Hu, Hua Li, Yu-Kang Tu, Shih-Jung Lin
2020 Journal of Dental Sciences  
doi:10.1016/j.jds.2020.06.026 pmid:33384786 pmcid:PMC7770323 fatcat:wsbysdnl6nd6vixr3lw4un2z4u

A Primer on Network Meta-Analysis for Dental Research

Yu-Kang Tu, Clovis Mariano Faggion
2012 ISRN Dentistry  
In the last decade, a new statistical methodology, namely, network meta-analysis, has been developed to address limitations in traditional pairwise meta-analysis. Network meta-analysis incorporates all available evidence into a general statistical framework for comparisons of all available treatments. A further development in the network meta-analysis is to use a Bayesian statistical approach, which provides a more flexible modelling framework to take into account heterogeneity in the evidence
more » ... nd complexity in the data structure. The aim of this paper is therefore to provide a nontechnical introduction to network meta-analysis for dental research community and raise the awareness of it. An example was used to demonstrate how to conduct a network meta-analysis and the differences between it and traditional meta-analysis. The statistical theory behind network meta-analysis is nevertheless complex, so we strongly encourage close collaboration between dental researchers and experienced statisticians when planning and conducting a network meta-analysis. The use of more sophisticated statistical approaches such as network meta-analysis will improve the efficiency in comparing the effectiveness between multiple treatments across a set of trials.
doi:10.5402/2012/276520 pmid:22919506 pmcid:PMC3418651 fatcat:ifotekwlazg5bm7hkufvtcmdia

Interband scattering in MgB2 [article]

R.P.S.M. Lobo, M. Elsen, P. Monod, J.J. Tu, Eun-Mi Choi, Hyeong-Jin Kim, W. N. Kang, Sung-Ik Lee, R.J. Cava, G.L. Carr
2004 arXiv   pre-print
The scattering process responsible for connecting the bands remains one of the last open questions on the physical properties of MgB2. Through the analysis of the equilibrium and photo-induced far-infrared properties as well as electron spin resonance of MgB2 we propose a phonon mediated energy transfer process between the bands based on the coupling of quasiparticles to an E2g phonon.
arXiv:cond-mat/0404382v1 fatcat:zabhl6ad35c6hg54hulbdd32bm

Clinical Analysis of Intraperitoneal Lymphangioma

Ying-Min Yao, Qing Li, Dong Ji, Kang-Sheng Tu, Chang-Wei Dou
2015 Chinese Medical Journal  
doi:10.4103/0366-6999.169061 pmid:26608984 pmcid:PMC4795246 fatcat:qbkptqy6rjhgtg3zv7sssvvnyi

Using structural equation modeling for network meta-analysis

Yu-Kang Tu, Yun-Chun Wu
2017 BMC Medical Research Methodology  
Network meta-analysis overcomes the limitations of traditional pair-wise meta-analysis by incorporating all available evidence into a general statistical framework for simultaneous comparisons of several treatments. Currently, network meta-analyses are undertaken either within the Bayesian hierarchical linear models or frequentist generalized linear mixed models. Structural equation modeling (SEM) is a statistical method originally developed for modeling causal relations among observed and
more » ... t variables. As random effect is explicitly modeled as a latent variable in SEM, it is very flexible for analysts to specify complex random effect structure and to make linear and nonlinear constraints on parameters. The aim of this article is to show how to undertake a network meta-analysis within the statistical framework of SEM. Methods: We used an example dataset to demonstrate the standard fixed and random effect network meta-analysis models can be easily implemented in SEM. It contains results of 26 studies that directly compared three treatment groups A, B and C for prevention of first bleeding in patients with liver cirrhosis. We also showed that a new approach to network meta-analysis based on the technique of unrestricted weighted least squares (UWLS) method can also be undertaken using SEM. Results: For both the fixed and random effect network meta-analysis, SEM yielded similar coefficients and confidence intervals to those reported in the previous literature. The point estimates of two UWLS models were identical to those in the fixed effect model but the confidence intervals were greater. This is consistent with results from the traditional pairwise meta-analyses. Comparing to UWLS model with common variance adjusted factor, UWLS model with unique variance adjusted factor has greater confidence intervals when the heterogeneity was larger in the pairwise comparison. The UWLS model with unique variance adjusted factor reflects the difference in heterogeneity within each comparison. Conclusion: SEM provides a very flexible framework for univariate and multivariate meta-analysis, and its potential as a powerful tool for advanced meta-analysis is still to be explored.
doi:10.1186/s12874-017-0390-9 pmid:28709406 pmcid:PMC5512972 fatcat:3iwymqdkvzh4tl6pt7tzbgcdva

Consistent 3D Hand Reconstruction in Video via self-supervised Learning [article]

Zhigang Tu, Zhisheng Huang, Yujin Chen, Di Kang, Linchao Bao, Bisheng Yang, Junsong Yuan
2022 arXiv   pre-print
Tu, Z. Huang, B.  ...  Kang and L. Bao are with Tencent AI Lab (email: di.kang@outlook.com, linchaobao@gmail.com). • J.  ... 
arXiv:2201.09548v1 fatcat:sv6463vtzndkdlv2jhsq2itpim

Hsa_circ_0046523 Mediates an Immunosuppressive Tumor Microenvironment by Regulating MiR-148a-3p/PD-L1 Axis in Pancreatic Cancer

Xiaowei Fu, Gen Sun, Shuju Tu, Kang Fang, Yuanpeng Xiong, Yi Tu, Ming Zha, Tao Xiao, Weidong Xiao
2022 Frontiers in Oncology  
BackgroundCircular RNAs (circRNAs) are a novel type of non-coding RNA, play an important role in the progression of tumors. However, the function and mechanism of circRNAs in regulating immune microenvironment of pancreatic cancer (PC) remain largely unclear.MethodsThe effects of hsa_circ_0046523 expression on proliferation, migration and invasion of PC cells were analyzed by CCK8 and Transwell assays. Flow cytometry was used to detect the proportion of CD4+ T cells, CD8+ T cells and Tregs in
more » ... ripheral blood mononuclear cells (PBMCs) after co-culture, and the apoptosis, depletion and function of CD8+ T cells. The expression levels of immunoregulatory cytokines were detected by enzyme linked immunosorbent assay (ELISA). The dual-luciferase reporter was performed to determine the interaction between hsa_circ_0046523, miR-148a-3p, and PD-L1. Rescue experiments and PD-L1 blocking experiments were employed to investigate whether hsa_circ_0046523 exerts its biological function by miR-148a-3p/PD-L1 in PC. Furthermore, an immunocompetent murine PC model was established to confirm these findings.ResultsHsa_circ_0046523 expression was remarkably upregulated in PC tissues and cell lines. Moreover, high expression of hsa_circ_0046523 was correlated with advanced pathological stage and poorer prognosis. Hsa_circ_0046523 overexpression promoted the proliferation, migration and invasion of PC cells in vitro. Co-culture experiments confirmed that forced expression of hsa_circ_0046523 could decrease the proportion of CD4+ and CD8+ T cells, as well as increase the proportion of Tregs among peripheral blood mononuclear cells (PBMCs). Meanwhile, hsa_circ_0046523 overexpression promoted the apoptosis and exhaustion of CD8+ T cells, inhibited CD8+ T cell function, increased the secretion of immunosuppressive cytokines IL-10 and TGF-β, and decreased the secretion of immune effector cytokines IFN-γ and IL-2 among PBMCs. Mechanistically, hsa_circ_0046523 exerted its biological function by binding to miR-148a-3p to upregulate PD-L1 expression in PC. Moreover, these immune modulating functions of miR-148a-3p/PD-L1 axis were also confirmed in an immunocompetent murine PC model.ConclusionsOur study suggests that hsa_circ_0046523/miR-148a-3p/PD-L1 regulatory axis mediates PC immunosuppressive microenvironment and these molecules are expected to be new targets for remodeling tumor immune microenvironment of PC.
doi:10.3389/fonc.2022.877376 pmid:35712476 pmcid:PMC9192335 fatcat:jxhi73qri5br5kwukgymeymog4
« Previous Showing results 1 — 15 out of 14,074 results