Fluorescent sensors using DNA-functionalized graphene oxide

The final publication is available at Springer via http://dx.doi.org/10.1007/s00216-014-7888-3In the past few years, graphene oxide (GO) has emerged as a unique platform for developing DNA-based biosensors, given the DNA adsorption and fluorescence-quenching properties of GO. Adsorbed DNA probes can be desorbed from the GO surface in the presence of target analytes, producing a fluorescence signal. In addition to this initial design, many other strategies have been reported, including the use of aptamers, molecular beacons, and DNAzymes as probes, label-free detection, utilization of the intrinsic fluorescence of GO, and the application of covalently linked DNA probes. The potential applications of DNA-functionalized GO range from environmental monitoring and cell imaging to biomedical diagnosis. In this review, we first summarize the fundamental surface interactions between DNA and GO and the related fluorescence-quenching mechanism. Following that, the various sensor design strategies are critically compared. Problems that must be overcome before this technology can reach its full potential are described, and a few future directions are also discussed.University of Waterloo || Natural Sciences and Engineering Research Council || Ontario Ministry of Research and Innovation || Foundation for Shenghua Scholar || National Natural Science Foundation of China || Grant No. 81301258, 21301195 Postdoctoral Science Foundation of Central South University and Hunan province ||Grant No. 124896 China Postdoctoral Science Foundation || Grant No. 2013M540644 Hunan Provincial Natural Science Foundation of China || Grant No. 13JJ4029 Specialized Research Fund for the Doctoral Program of Higher Education of China || Grant No. 2013016212007

Effective and efficient midlevel visual elements-oriented land-use classification using VHR remote sensing images

Land-use classification using remote sensing images covers a wide range of applications. With more detailed spatial and textural information provided in very high resolution (VHR) remote sensing images, a greater range of objects and spatial patterns can be observed than ever before. This offers us a new opportunity for advancing the performance of land-use classification. In this paper, we first introduce an effective midlevel visual elements-oriented land-use classification method based on “partlets,” which are a library of pretrained part detectors used for midlevel visual elements discovery. Taking advantage of midlevel visual elements rather than low-level image features, a partlets-based method represents images by computing their responses to a large number of part detectors. As the number of part detectors grows, a main obstacle to the broader application of this method is its computational cost. To address this problem, we next propose a novel framework to train coarse-to-fine shared intermediate representations, which are termed “sparselets,” from a large number of pretrained part detectors. This is achieved by building a single-hidden-layer autoencoder and a single-hidden-layer neural network with an L0-norm sparsity constraint, respectively. Comprehensive evaluations on a publicly available 21-class VHR land-use data set and comparisons with state-of-the-art approaches demonstrate the effectiveness and superiority of this paper

Intracellular Detection of ATP Using an Aptamer Beacon Covalently Linked to Graphene Oxide Resisting Nonspecific Probe Displacement

This document is the Accepted Manuscript version of a Published Work that appeared in final form in Analytical Chemistry copyright © American Chemical Society after peer review and technical editing by publisher. To access the final edited and published work see Liu, Z., Chen, S., Liu, B., Wu, J., Zhou, Y., He, L., … Liu, J. (2014). Intracellular Detection of ATP Using an Aptamer Beacon Covalently Linked to Graphene Oxide Resisting Nonspecific Probe Displacement. Analytical Chemistry, 86(24), 12229–12235. https://doi.org/10.1021/ac503358mFluorescent aptamer probes physisorbed on graphene oxide (GO) have recently emerged as a useful sensing platform. A signal is generated by analyte-induced probe desorption. To address nonspecific probe displacement and the false positive signal, we herein report a covalently linked aptamer probe for adenosine triphosphate (ATP) detection. A fluorophore and amino dual modified aptamer was linked to the carboxyl group on GO with a coupling efficiency of ∼50%. The linearity, specificity, stability, and regeneration of the covalent sensor were systematically studied and compared to the physisorbed probe. Both sensors have similar sensitivity, but the covalent one is more resistant to nonspecific probe displacement by proteins. The covalent sensor has a dynamic range from 0.125 to 2 mM ATP in buffer at room temperature and is resistance to DNase I. Intracellular ATP imaging was demonstrated using the covalent sensor, which generated a higher fluorescence signal than the physisorbed sensor. After the cells were stimulated with 5 mM Ca2+ for ATP production, the intracellular signal enhanced by 31.8%. This work highlights the advantages of covalent aptamer sensors using GO as both a quencher and a delivery vehicle for intracellular metabolite detection.National Natural Science Foundation of China || Grant No. 81301258, 21301195 Hunan Provincial Natural Science Foundation of China || Grant No. 13JJ4029 Specialized Research Fund for the Doctoral Program of Higher Education of China || Grant No. 20130162120078 Postdoctoral Science Foundation of Central South University and China || Grant No. 124896 China Postdoctoral Science Foundation || Grant No. 2013M540644 International Postdoctoral Exchange Fellowship Program ||Grant No. 20140014 Shenghua Scholar Foundation || Natural Sciences and Engineering Research Council |

Global analysis of microRNA target gene expression reveals that miRNA targets are lower expressed in mature mouse and Drosophila tissues than in the embryos

MicroRNAs (miRNAs) are non-coding small RNAs of ∼22 nt that regulate the gene expression by base pairing with target mRNAs, leading to mRNA cleavage or translational repression. It is currently estimated that miRNAs account for ∼1% of predicted genes in higher eukaryotic genomes and that up to 30% of genes might be regulated by miRNAs. However, only very few miRNAs have been functionally characterized and the general functions of miRNAs are not globally studied. In this study, we systematically analyzed the expression patterns of miRNA targets using several public microarray profiles. We found that the expression levels of miRNA targets are lower in all mouse and Drosophila tissues than in the embryos. We also found miRNAs more preferentially target ubiquitously expressed genes than tissue-specifically expressed genes. These results support the current suggestion that miRNAs are likely to be largely involved in embryo development and maintaining of tissue identity

Recombinant Human Endostatin Endostar Inhibits Tumor Growth and Metastasis in a Mouse Xenograft Model of Colon Cancer

To investigate the effects of recombinant human endostatin Endostar on metastasis and angiogenesis and lymphangiogenesis of colorectal cancer cells in a mouse xenograft model. Colon cancer cells SW620 were injected subcutaneously into the left hind flank of nude mice to establish mouse xenograft models. The mice were treated with normal saline or Endostar subcutaneously every other day. The growth and lymph node metastasis of tumor cells, angiogenesis and lymphangiogenesis in tumor tissue were detected. Apoptosis and cell cycle distribution were studied by flow cytometry. The expression of VEGF-A, -C, or -D in SW620 cells was determined by immunoblotting assays. Endostar inhibited tumor growth and the rate of lymph node metastasis (P < 0.01). The density of blood vessels in or around the tumor area was 12.27 ± 1.21 and 22.25 ± 2.69 per field in Endostar-treated mice and controls (P < 0.05), respectively. Endostar also decreased the density of lymphatic vessels in tumor tissues (7.84 ± 0.81 vs. 13.83 ± 1.08, P < 0.05). Endostar suppresses angiogenesis and lymphangiogenesis in the lymph nodes with metastases, simultaneously. The expression of VEGF-A, -C and -D in SW620 cells treated with Endostar was substantially lower than that of controls. Endostar inhibited growth and lymph node metastasis of colon cancer cells by inhibiting angiogenesis and lymphangiogenesis in a mouse xenograft model of colon cancer

Semi-Supervised Adaptive Parzen Gentleboost Algorithm for Fault Diagnosis

Abstract In this paper, we present a novel semi-supervised strategy for machine fault diagnosis

Evaluating user&apos;s energy consumption using kinect based skeleton tracking, in:

ABSTRACT By utilizing the dataset provided by 3DLife/Huawei Challenge of ACM Multimedia, we propose a refreshing application that automatically evaluates player&apos;s energy consumption in gaming scenarios by a model with tracked skeleton, which may help users to know their exercise effects and even diet or reduce their weights. We develop a program to compute the energy consumption in real time by analyzing data captured from Microsoft Kinect, and also give a cue in the dynamic interaction. We model 3D human skeleton by joining different body parts with 15 nodes, and decompose player action into rigid body motions of these parts. Amount of energy consumed in the action is calculated as the sum of powers required to overcome gravity of each part. Experimental results show that instantaneous and total energy consumption of different dancers can be stably calculated. The hardware system is based on low-price Kinect, and easily accepted by users. The proposed application also provides a quantitative approach which help users to control their dining and exercise intensity

Multiresolution wavelet analysis of shape orientation for 3d shape retrieval

ac.jp In the present paper, we propose a novel 3D shape descriptor by performing multiresolution wavelet analysis on shape orientation. We consider the spatial orientation of the polygon surfaces of a shape as important information and characterize this information by setting view planes. We then analyze these view planes by multiresolution wavelet analysis, a powerful tool used in signal processing, and lower the high resolution to low frequency domains because the high resolution contains too much information, which must be reduced in order to capture the main components. We compare the proposed descriptor to two of the best-performing descriptors on the Princeton Shape Benchmark, Spherical Harmonics Descriptor and Light Field Descriptor, and analyze the performance of the proposed descriptor from several aspects. We also compare the proposed descriptor to the Spherical Wavelet Descriptor, which won the best paper award at SMI06, a near method to our descriptor. The proposed descriptor improves the retrieval performance

Effect of niobium alloying on the austenite grain growth and mechanical properties of ultrahigh-strength stainless steel

In the temperature range of 1000 °C–1150 °C and the holding time range of 30–150 min, the effect of niobium (Nb) on the behavior of grain growth and the evolution pattern of the mechanical properties of a martensitic stainless steel was studied. This study found that the addition of Nb allowed a large amount of undissolved NbC phase to be present in the steel, that the dragging effect of the solute atoms such as solute Nb and Mo reduced the migration rate of the grain boundary , and the pinning effect of NbC hindered the growth of grains, and that the growth rate of grains in 0.11Nb steel was slow in the temperature range of 1000 °C–1080 °C and increased significantly at the temperature range of 1080 °C–1150 °C. Next, the kinetic equations of the grain growth of 0.002Nb steel and 0.11Nb steel were constructed. The second phase strengthening of NbC and the fine grain strengthening jointly increased the yield strength of the steel but reduced the plasticity and ultimate tensile strength (UTS) of the steel. The addition of Nb had a minor effect on the content of retained austenite in the steel, but its refining effect on the hierarchical martensite microstructure increased the number of nucleation sites of retained austenite, reduced their sizes, made their distribution more dispersed, and more effectively hindered crack propagation, thus improving the toughness of the steel