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https://www.readbyqxmd.com/read/27926946/a-multi-verse-optimizer-with-levy-flights-for-numerical-optimization-and-its-application-in-test-scheduling-for-network-on-chip
#1
Cong Hu, Zhi Li, Tian Zhou, Aijun Zhu, Chuanpei Xu
We propose a new meta-heuristic algorithm named Levy flights multi-verse optimizer (LFMVO), which incorporates Levy flights into multi-verse optimizer (MVO) algorithm to solve numerical and engineering optimization problems. The Original MVO easily falls into stagnation when wormholes stochastically re-span a number of universes (solutions) around the best universe achieved over the course of iterations. Since Levy flights are superior in exploring unknown, large-scale search space, they are integrated into the previous best universe to force MVO out of stagnation...
2016: PloS One
https://www.readbyqxmd.com/read/27926871/in%C3%A2-vivo-visualization-of-cardiomyocyte-apicobasal-polarity-reveals-epithelial-to-mesenchymal-like-transition-during-cardiac-trabeculation
#2
Vanesa Jiménez-Amilburu, S Javad Rasouli, David W Staudt, Hiroyuki Nakajima, Ayano Chiba, Naoki Mochizuki, Didier Y R Stainier
Despite great strides in understanding cardiac trabeculation, many mechanistic aspects remain unclear. To elucidate how cardiomyocyte shape changes are regulated during this process, we engineered transgenes to label their apical and basolateral membranes. Using these tools, we observed that compact-layer cardiomyocytes are clearly polarized while delaminating cardiomyocytes have lost their polarity. The apical transgene also enabled the imaging of cardiomyocyte apical constriction in real time. Furthermore, we found that Neuregulin signaling and blood flow/cardiac contractility are required for cardiomyocyte apical constriction and depolarization...
December 6, 2016: Cell Reports
https://www.readbyqxmd.com/read/27926833/conformational-plasticity-in-the-transsynaptic-neurexin-cerebellin-glutamate-receptor-adhesion-complex
#3
Shouqiang Cheng, Alpay B Seven, Jing Wang, Georgios Skiniotis, Engin Özkan
Synaptic specificity is a defining property of neural networks. In the cerebellum, synapses between parallel fiber neurons and Purkinje cells are specified by the simultaneous interactions of secreted protein cerebellin with pre-synaptic neurexin and post-synaptic delta-type glutamate receptors (GluD). Here, we determined the crystal structures of the trimeric C1q-like domain of rat cerebellin-1, and the first complete ectodomain of a GluD, rat GluD2. Cerebellin binds to the LNS6 domain of α- and β-neurexin-1 through a high-affinity interaction that involves its highly flexible N-terminal domain...
December 6, 2016: Structure
https://www.readbyqxmd.com/read/27926756/cutting-and-decellularization-of-multiple-corneal-stromal-lamellae-for-the-bioengineering-of-endothelial-grafts
#4
Zhiguo He, Fabien Forest, Aurélien Bernard, Anne-Sophie Gauthier, Romain Montard, Michel Peoc'h, Clotilde Jumelle, Emilie Courrier, Chantal Perrache, Philippe Gain, Gilles Thuret
Purpose: Engineered corneal endothelial grafts able to provide numerous functional endothelial cells for the restoration of corneal transparency would be a worthwhile way of replacing donor tissue, which is extremely scarce. The grafts are simply constructed: a biocompatible thin and transparent carrier colonized by a monolayer of cultured endothelial cells (ECs). Here we describe a process able to obtain appropriate carriers by recycling human corneas unsuitable for graft in their original state, but liable to provide multiple thin lamellae when cut with a femtosecond laser as used in refractive surgery...
December 1, 2016: Investigative Ophthalmology & Visual Science
https://www.readbyqxmd.com/read/27926727/interactive-and-scalable-biology-cloud-experimentation-for-scientific-inquiry-and-education
#5
Zahid Hossain, Engin W Bumbacher, Alice M Chung, Honesty Kim, Casey Litton, Ashley D Walter, Sachin N Pradhan, Kemi Jona, Paulo Blikstein, Ingmar H Riedel-Kruse
No abstract text is available yet for this article.
December 7, 2016: Nature Biotechnology
https://www.readbyqxmd.com/read/27926703/recent-patents-in-antibody-engineering
#6
(no author information available yet)
No abstract text is available yet for this article.
December 7, 2016: Nature Biotechnology
https://www.readbyqxmd.com/read/27926545/immune-responses-to-bioengineered-organs
#7
Jordi Ochando, Dominique Charron, Pedro M Baptista, Basak E Uygun
PURPOSE OF REVIEW: Organ donation in the United States registered 9079 deceased organ donors in 2015. This high percentage of donations allowed organ transplantation in 29 851 recipients. Despite increasing numbers of transplants performed in comparison with previous years, the numbers of patients that are in need for a transplant increase every year at a higher rate. This reveals that the discrepancy between the demand and availability of organs remains fundamental problem in organ transplantation...
December 6, 2016: Current Opinion in Organ Transplantation
https://www.readbyqxmd.com/read/27926512/depression-of-oncogenecity-by-dephosphorylating-and-degrading-bcr-abl
#8
Miao Gao, Zheng-Lan Huang, Kun Tao, Qing Xiao, Xin Wang, Wei-Xi Cao, Min Xu, Jing Hu, Wen-Li Feng
Aberrant phosphorylation and overexpression of BCR-ABL fusion protein are responsible for the main pathogenesis in chronic myeloid leukemia (CML). Phosphorylated BCR-ABL Y177 recruits GRB2 adaptor and triggers leukemic RAS-MAPK and PI3K-AKT signals. In this study, we engineered a SPOA system to dephosphorylate and degrade BCR-ABL by targeting BCR-ABL Y177. We tested its effect on BCR-ABL phosphorylation and expression, as well as cell proliferation and apoptosis in CML cells. We found that SPOA remarkably dephosphorylated BCR-ABL Y177, prevented GRB2 recruitment, and uncoupled RAS-MAPK and PI3K-AKT signals...
December 1, 2016: Oncotarget
https://www.readbyqxmd.com/read/27925846/characteristics-sources-and-cytotoxicity-of-atmospheric-polycyclic-aromatic-hydrocarbons-in-urban-roadside-areas-of-hangzhou-china
#9
Hongzhen Bai, Hongjian Zhang
The primary objective of this study is to understand the profiles, sources and cytotoxic effects of atmospheric polycyclic aromatic hydrocarbons (PAHs), which are closely related to urban air contamination and public health, in urban roadside environments. On-road sampling campaigns were conducted from 2014 to 2015 at three urban road sites in Hangzhou, China. Sixteen gaseous and particulate matter (PM) 2.5-bound PAHs were identified and quantified using gas chromatography-mass spectrometry (GC-MS). The total PAH concentrations at the three sites ranged from 750 to1142 ng/m(3) and 1050 to 1483 ng/m(3) in summer and winter, respectively...
December 7, 2016: Journal of Environmental Science and Health. Part A, Toxic/hazardous Substances & Environmental Engineering
https://www.readbyqxmd.com/read/27925746/single-photon-absorber-based-on-strongly-interacting-rydberg-atoms
#10
C Tresp, C Zimmer, I Mirgorodskiy, H Gorniaczyk, A Paris-Mandoki, S Hofferberth
We report on the realization of a free-space single-photon absorber, which deterministically absorbs exactly one photon from an input pulse. Our scheme is based on the saturation of an optically thick medium by a single photon due to Rydberg blockade. By converting one absorbed input photon into a stationary Rydberg excitation, decoupled from the light field through fast engineered dephasing, we blockade the full atomic cloud and change our optical medium from opaque to transparent. We show that this results in the subtraction of one photon from the input pulse over a wide range of input photon numbers...
November 25, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27925724/interface-structure-band-alignment-and-built-in-potentials-at-lafeo_-3-n-srtio_-3-heterojunctions
#11
Ryan Comes, Scott Chambers
Interface structure at polar-nonpolar interfaces has been shown to be a key factor in controlling emergent behavior in oxide heterostructures, including the LaFeO_{3}/n-SrTiO_{3} system. We demonstrate via high-energy-resolution x-ray photoemission that epitaxial LaFeO_{3}/n-SrTiO_{3}(001) heterojunctions engineered to have opposite interface polarities exhibit very similar band offsets and potential gradients within the LaFeO_{3} films. However, differences in the potential gradient within the SrTiO_{3} layer depending on polarity may promote hole diffusion into LaFeO_{3} for applications in photocatalysis...
November 25, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27925719/synthetic-dimensions-and-spin-orbit-coupling-with-an-optical-clock-transition
#12
L F Livi, G Cappellini, M Diem, L Franchi, C Clivati, M Frittelli, F Levi, D Calonico, J Catani, M Inguscio, L Fallani
We demonstrate a novel way of synthesizing spin-orbit interactions in ultracold quantum gases, based on a single-photon optical clock transition coupling two long-lived electronic states of two-electron ^{173}Yb atoms. By mapping the electronic states onto effective sites along a synthetic "electronic" dimension, we have engineered fermionic ladders with synthetic magnetic flux in an experimental configuration that has allowed us to achieve uniform fluxes on a lattice with minimal requirements and unprecedented tunability...
November 25, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27925715/trapped-ion-quantum-logic-with-global-radiation-fields
#13
S Weidt, J Randall, S C Webster, K Lake, A E Webb, I Cohen, T Navickas, B Lekitsch, A Retzker, W K Hensinger
Trapped ions are a promising tool for building a large-scale quantum computer. However, the number of required radiation fields for the realization of quantum gates in any proposed ion-based architecture scales with the number of ions within the quantum computer, posing a major obstacle when imagining a device with millions of ions. Here, we present a fundamentally different approach for trapped-ion quantum computing where this detrimental scaling vanishes. The method is based on individually controlled voltages applied to each logic gate location to facilitate the actual gate operation analogous to a traditional transistor architecture within a classical computer processor...
November 25, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27925692/a-method-to-generate-and-analyze-modified-myristoylated-proteins
#14
Huanyao Gao, Wei Sun, Zhiquan Song, Yanbao Yu, Li Wang, Xian Chen, Qisheng Zhang
Covalent lipid modification of proteins is essential to their cellular localizations and functions. Engineered lipid motif coupled with bio-orthogonal chemistry has been utilized to identify myristoylated or palmitoylated proteins in cells. However, whether modified proteins have similar properties as endogenous ones has not been well investigated mainly due to lack of methods to generate and analyze purified proteins. We have developed a method that utilizes metabolic interference and mass spectrometry to produce and analyze modified, myristoylated small GTPase ADP-ribosylation factor 1 (Arf1)...
December 7, 2016: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/27925592/enzyme-free-scalable-dna-digital-design-techniques-a-review
#15
Aby Konampurath George, Harpreet Singh
With the recent developments in DNA nanotechnology, DNA has been used as the basic building block for the design of nanostructures, autonomous molecular motors, various devices, and circuits. DNA is considered as a possible candidate for replacing silicon for designing digital circuits in a near future, especially in implantable medical devices, because of its parallelism, computational powers, small size, light weight, and compatibility with bio-signals. The research in DNA digital design is in early stages of development, and electrical and computer engineers are not much attracted towards this field...
December 2, 2016: IEEE Transactions on Nanobioscience
https://www.readbyqxmd.com/read/27925584/topological-analysis-and-gaussian-decision-tree-effective-representation-and-classification-of-biosignals-of-small-sample-size
#16
Zhifei Zhang, Yang Song, Haochen Cui, Jayne Wu, Fernando Schwartz, Hairong Qi
GOAL: Bucking the trend of big data, in microdevice engineering, small sample size is common, especially when the device is still at the proof-of-concept stage. The small sample size, small inter-class variation, and large intra-class variation, have brought biosignal analysis new challenges. Novel representation and classification approaches need to be developed to effectively recognize targets of interests with the absence of a large training set. METHODS: Moving away from the traditional signal analysis in the spatiotemporal domain, we exploit the biosignal representation in the topological domain that would reveal the intrinsic structure of point clouds generated from the biosignal...
December 2, 2016: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/27925477/relevance-of-meniscal-cell-regional-phenotype-to-tissue-engineering
#17
Shawn P Grogan, Chantal Pauli, Martin K Lotz, Darryl D D'Lima
PURPOSE: Meniscus contains heterogeneous populations of cells that have not been fully characterized. Cell phenotype is often lost during culture; however, culture expansion is typically required for tissue engineering. We examined and compared cell surface molecule expression levels on human meniscus cells from the vascular and avascular regions and articular chondrocytes while documenting changes during culture-induced dedifferentiation. MATERIALS AND METHODS: Expression of 16 different surface molecules were examined by flow cytometry after monolayer culture for 24 h, 1 week, and 2 weeks...
December 7, 2016: Connective Tissue Research
https://www.readbyqxmd.com/read/27925474/fiber-development-and-matrix-production-in-tissue-engineered-menisci-using-bovine-mesenchymal-stem-cells-and-fibrochondrocytes
#18
Mary Clare McCorry, Lawrence J Bonassar
Mesenchymal stem cells (MSCs) have been investigated with promising results for meniscus healing and tissue engineering. While MSCs are known to contribute to ECM production, less is known about how MSCs produce and align large organized fibers for application to tissue engineering the meniscus. The goal of this study was to investigate the capability of MSCs to produce and organize extracellular matrix molecules compared to meniscal fibrochondrocytes (FCCs). Bovine FCCs and MSCs were encapsulated in an anatomically accurate collagen meniscus using mono-culture and co-culture of each cell type...
December 7, 2016: Connective Tissue Research
https://www.readbyqxmd.com/read/27925461/in-it-for-the-long-haul-the-cytocompatibility-of-aged-graphene-oxide-and-its-degradation-products
#19
Brian D Holt, Anne M Arnold, Stefanie A Sydlik
Synthetic biomaterials are poised to transform medicine; however, current synthetic options have yet to ideally recapitulate the desirable properties of native tissue. Thus, the development of new synthetic biomaterials remains an active challenge. Due to its excellent properties, including electrical conductivity, water dispersibility, and capacity for functionalization, graphene oxide (GO) holds potential for myriads of applications, including biological devices. While many studies have evaluated the compatibility of freshly prepared GO, understanding the compatibility of GO as it ages in an aqueous environment is crucial for its safe implementation in long-term biological applications...
December 2016: Advanced Healthcare Materials
https://www.readbyqxmd.com/read/27925458/an-engineered-breast-cancer-model-on-a-chip-to-replicate-ecm-activation-in-vitro-during-tumor-progression
#20
Filomena Gioiella, Francesco Urciuolo, Giorgia Imparato, Virginia Brancato, Paolo A Netti
In this work, a new model of breast cancer is proposed featuring both epithelial and stromal tissues arranged on a microfluidic chip. The main task of the work is the in vitro replication of the stromal activation during tumor epithelial invasion. The activation of tumor stroma and its morphological/compositional changes play a key role in tumor progression. Despite emerging evidences, to date the activation of tumor stroma in vitro has not been achieved yet. The tumor-on-chip proposed in this work is built in order to replicate the features of its native counterpart: multicellularity (tumor epithelial cell and stromal cell); 3D engineered stroma compartment composed of cell-assembled extracellular matrix (ECM); reliable 3D tumor architecture...
December 2016: Advanced Healthcare Materials
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