- On the use of modified phase transform weighting functions for acoustic imaging with the generalized cross correlation. [Journal Article]
- JAJ Acoust Soc Am 2019; 145(3):1546
- The generalized cross correlation (GCC) is an efficient technique for performing acoustic imaging. However, it suffers from important limitations such as a large main lobe width for noise sources wit…
The generalized cross correlation (GCC) is an efficient technique for performing acoustic imaging. However, it suffers from important limitations such as a large main lobe width for noise sources with low frequency content or a high amplitude of side lobes for noise sources with high frequencies. Prefiltering operation of the microphone signals by a weighting function can be used to improve the acoustic image. In this work, two weighting functions based on PHAse Transform (PHAT) improvements are used. The first adds an exponent to the PHAT expression (ρ-PHAT), while the second adds the minimum value of the coherence function to the denominator (ρ-PHAT-C). Numerical acoustic images obtained with the GCC and those weighting functions are compared and quantitatively assessed thanks to a metric based on a covariance ellipse, which surrounds either the main lobe or the side lobes. The weighting function ρ-PHAT-C provides the smallest surface ellipses especially when the arithmetic of the GCC is replaced by the geometric mean (GEO). Experimental measurements are carried out in a hemi-anechoic room and a reverberant chamber where two loudspeakers were set in front of microphone array. The acoustic images obtained confirm that the ρ-PHAT-C with the GEO outperforms the GCC, GCC-PHAT, and GCC ρ-PHAT.
- Visualizing Engrafted Human Cancer and Therapy Responses in Immunodeficient Zebrafish. [Journal Article]
- CellCell 2019 Jun 13; 177(7):1903-1914.e14
- Xenograft cell transplantation into immunodeficient mice has become the gold standard for assessing pre-clinical efficacy of cancer drugs, yet direct visualization of single-cell phenotypes is diffic…
Xenograft cell transplantation into immunodeficient mice has become the gold standard for assessing pre-clinical efficacy of cancer drugs, yet direct visualization of single-cell phenotypes is difficult. Here, we report an optically-clear prkdc-/-, il2rga-/- zebrafish that lacks adaptive and natural killer immune cells, can engraft a wide array of human cancers at 37°C, and permits the dynamic visualization of single engrafted cells. For example, photoconversion cell-lineage tracing identified migratory and proliferative cell states in human rhabdomyosarcoma, a pediatric cancer of muscle. Additional experiments identified the preclinical efficacy of combination olaparib PARP inhibitor and temozolomide DNA-damaging agent as an effective therapy for rhabdomyosarcoma and visualized therapeutic responses using a four-color FUCCI cell-cycle fluorescent reporter. These experiments identified that combination treatment arrested rhabdomyosarcoma cells in the G2 cell cycle prior to induction of apoptosis. Finally, patient-derived xenografts could be engrafted into our model, opening new avenues for developing personalized therapeutic approaches in the future.
- Direct Synthesis of Reduced Graphene Oxide/TiO₂ Nanotubes Composite from Graphite Oxide as a High-Efficiency Visible-Light-Driven Photocatalyst. [Journal Article]
- JNJ Nanosci Nanotechnol 2019 Aug 01; 19(8):5195-5204
- Synthesis of reduced graphene oxide/TiO₂ nanotubes (rGO/TNTs) composite is being attended. However, the synthesis of rGO/TNTs composite directly from graphite oxide with a greener approach is still c…
Synthesis of reduced graphene oxide/TiO₂ nanotubes (rGO/TNTs) composite is being attended. However, the synthesis of rGO/TNTs composite directly from graphite oxide with a greener approach is still challenging. In this study, we directly synthesized rGO/TNTs composite by a simple method from graphite oxide and titanium dioxide nanotube (TNTs) powder without involving any assistant agents. The formation of the graphene oxide (GO) was confirmed by X-ray diffraction (XRD) pattern, transmission electron microscope (TEM) image, Fourier-transform infrared (FTIR) spectroscopy, and X-ray photoelectron spectroscopy (XPS). Besides, photoluminescence analysis (PL) was conducted to determine the defects of materials. The methylene blue (MB) photodegradation efficiency under visible light of rGO/TNTs composite achieved 80% after 180 min. In addition, the key of the photocatalytic mechanism of rGO/TNTs under visible light was systematically investigated via trapping experiments.
- Targeted RNA-sequencing identifies FBXW4 instead of MGEA5 as fusion partner of TGFBR3 in pleomorphic hyalinizing angiectatic tumor. [Journal Article]
- VAVirchows Arch 2019 Mar 25
- Pleomorphic hyalinizing angiectatic tumor (PHAT) is a rare mesenchymal tumor of intermediate malignancy. PHAT, and the related hemosiderotic fibrolipomatous tumor, show a recurrent t(1;10)(p22;q24). …
Pleomorphic hyalinizing angiectatic tumor (PHAT) is a rare mesenchymal tumor of intermediate malignancy. PHAT, and the related hemosiderotic fibrolipomatous tumor, show a recurrent t(1;10)(p22;q24). Fluorescence in situ hybridization (FISH) and BAC (bacterial artificial chromosome) clones have previously identified TGFBR3 and MGEA5 as fusion partners. However, targeted RNA-sequencing allowed for the correct identification of FBXW4 and not MGEA5 as the fusion partner of TGFBR3 in a subcutaneous PHAT, a finding further confirmed by RT-PCR. FBXW4 and MGEA5 share a common cytogenetic location at 10q24.32, thereby suggesting that the use of less precise technology may have led to inaccurate gene identification. The study of additional cases is however required.
- Functional impairment after successful surgical reconstruction for proximal hamstring avulsion. [Journal Article]
- IOInt Orthop 2018 Dec 19
- CONCLUSIONS: The presented study confirms good subjective functional outcomes after surgical intervention of hamstring avulsions in all scores. Nevertheless, using the PHAT, residual complaints are more common than often described in previous studies interpreting "conventional" scores. For future decision and patient guidance, more studies using injury-specific assessments such as the PHAT in combination with objective measurements are eligible.
- Pathogen-Host Analysis Tool (PHAT): an Integrative Platform to Analyze Next-Generation Sequencing Data. [Journal Article]
- BBioinformatics 2018 Dec 18
- The Pathogen-Host Analysis Tool (PHAT) is an application for processing and analyzing next-generation sequencing (NGS) data as it relates to relationships between pathogens and their hosts. Unlike cu…
The Pathogen-Host Analysis Tool (PHAT) is an application for processing and analyzing next-generation sequencing (NGS) data as it relates to relationships between pathogens and their hosts. Unlike custom scripts and tedious pipeline programming, PHAT provides an integrative platform encompassing raw and aligned sequence and reference file input, quality control (QC) reporting, alignment and variant calling, linear and circular alignment viewing, and graphical and tabular output. This novel tool aims to be user-friendly for life scientists studying diverse pathogen-host relationships.
- A green-brown plaque on the dorsal hand. [Journal Article]
- JCJAAD Case Rep 2019; 5(1):60-62
- Identification of expressed R-genes associated with leaf spot diseases in cultivated peanut. [Journal Article]
- MBMol Biol Rep 2019; 46(1):225-239
- Peanut (Arachis hypogaea L.) is an important food and oilseed crop worldwide. Yield and quality can be significantly reduced by foliar fungal diseases, such as early and late leaf spot diseases. Acce…
Peanut (Arachis hypogaea L.) is an important food and oilseed crop worldwide. Yield and quality can be significantly reduced by foliar fungal diseases, such as early and late leaf spot diseases. Acceptable levels of leaf spot resistance in cultivated peanut have been elusive due to environmental interactions and the proper combination of QTLs in any particular peanut genotype. Resistance gene analogs, as potential resistance (R)-genes, have unique roles in the recognition and activation of disease resistance responses. Novel R-genes can be identified by searches for conserved domains such as nucleotide binding site, leucine rich repeat, receptor like kinase, and receptor like protein from expressed genes or through genomic sequences. Expressed R-genes represent necessary plant signals in a disease response. The goals of this research are to identify expressed R-genes from cultivated peanuts that are naturally infected by early and late spot pathogens, compare these to the closest diploid progenitors, and evaluate specific gene expression in cultivated peanuts. Putative peanut R-genes (381) were available from a public database (NCBI). Primers were designed and PCR products were sequenced. A total of 214 sequences were produced which matched to proteins with the corresponding R-gene motifs. These R-genes were mapped to the genome sequences of Arachis duranensis and Arachis ipaensis, which are the closest diploid progenitors for tetraploid cultivated peanut, A. hypogaea. Identification and association of specific gene-expression will elucidate potential disease resistance mechanism in peanut and may facilitate the selection of breeding lines with high levels of leaf spot resistance.
- Towards End-to-End Acoustic Localization Using Deep Learning: From Audio Signals to Source Position Coordinates. [Journal Article]
- SSensors (Basel) 2018 Oct 12; 18(10)
- This paper presents a novel approach for indoor acoustic source localization using microphone arrays, based on a Convolutional Neural Network (CNN). In the proposed solution, the CNN is designed to d…
This paper presents a novel approach for indoor acoustic source localization using microphone arrays, based on a Convolutional Neural Network (CNN). In the proposed solution, the CNN is designed to directly estimate the three-dimensional position of a single acoustic source using the raw audio signal as the input information and avoiding the use of hand-crafted audio features. Given the limited amount of available localization data, we propose, in this paper, a training strategy based on two steps. We first train our network using semi-synthetic data generated from close talk speech recordings. We simulate the time delays and distortion suffered in the signal that propagate from the source to the array of microphones. We then fine tune this network using a small amount of real data. Our experimental results, evaluated on a publicly available dataset recorded in a real room, show that this approach is able to produce networks that significantly improve existing localization methods based on SRP-PHAT strategies and also those presented in very recent proposals based on Convolutional Recurrent Neural Networks (CRNN). In addition, our experiments show that the performance of our CNN method does not show a relevant dependency on the speaker's gender, nor on the size of the signal window being used.
New Search Next
- Proteome of olive non-glandular trichomes reveals protective protein network against (a)biotic challenge. [Journal Article]
- JPJ Plant Physiol 2018; 231:210-218
- Olive is one of the most important fruit crop trees in the history of Mediterranean because of the high quality oil. Olive oil has a well-balanced fatty acid composition along with biophenols, which …
Olive is one of the most important fruit crop trees in the history of Mediterranean because of the high quality oil. Olive oil has a well-balanced fatty acid composition along with biophenols, which make it exceptional in human diet and provide an exceptional value to the olive oil. Leaf non-glandular peltate trichomes are specialized cell types representing a protective barrier against acute environmental conditions. To characterize the proteome of this highly differentiated cell type, we performed a comparative proteomic analysis among isolated trichomes and trichome-less leaves. Proteins were separated and identified using the 2-DE MALDI-TOF/MS method. A number of enzymes involved in abiotic and biotic stress responses are present and may be responsible for the adaptation to prolonged adverse environmental conditions. The results show that this highly differentiated cell type is physiologically active fulfilling the demands of the trichomes in furnishing the leaf with a highly protective mechanism.