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Feature engineering

Shishu Zhang, Na Zhang, Yan Zhao, Ting Cheng, Xiaobo Li, Rui Feng, Hua Xu, Zhirong Liu, Jin Zhang, Lianming Tong
Two-dimensional (2D) layered materials have attracted tremendous attention and led to a prosperous development in both fundamental investigation and device applications in various fields, such as nanoelectronics, flexible devices, sustainable energy and catalysts. The precise characterization of the structure and properties of 2D materials is in urgent need. Raman scattering spectroscopy is one of the most popular characterization tools that is convenient, rapid and non-invasive. It provides information on both the lattice structure from the frequency of phonon modes and the electronic band structure through the intensity due to electronic resonance Raman scattering...
March 22, 2018: Chemical Society Reviews
Raúl Cruz-Barbosa, Erik-German Ramos-Pérez, Jesús Giraldo
G protein-coupled receptors (GPCRs) are integral cell membrane proteins of relevance for pharmacology. The complete tertiary structure including both extracellular and transmembrane domains has not been determined for any member of class C GPCRs. An alternative way to work on GPCR structural models is the investigation of their functionality through the analysis of their primary structure. For this, sequence representation is a key factor for the GPCRs' classification context, where usually, feature engineering is carried out...
March 19, 2018: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
Jacinta C Conrad, Ryan Poling-Skutvik
Bacteria overwhelmingly live in geometrically confined habitats that feature small pores or cavities, narrow channels, or nearby interfaces. Fluid flows through these confined habitats are ubiquitous in both natural and artificial environments colonized by bacteria. Moreover, these flows occur on timeand length scales comparable to those associated with motility of bacteria and with the formation and growth of biofilms, which are surface-associated communities that house the vast majority of bacteria and protect them from host and environmental stresses...
March 21, 2018: Annual Review of Chemical and Biomolecular Engineering
Andres Canales, Seongjun Park, Antje Kilias, Polina Anikeeva
Multifunctional devices for modulation and probing of neuronal activity during free behavior facilitate studies of functions and pathologies of the nervous system. Probes composed of stiff materials, such as metals and semiconductors, exhibit elastic and chemical mismatch with the neural tissue, which is hypothesized to contribute to sustained tissue damage and gliosis. Dense glial scars have been found to encapsulate implanted devices, corrode their surfaces, and often yield poor recording quality in long-term experiments...
March 21, 2018: Accounts of Chemical Research
Jeong In Kim, Cheol Sang Kim
The cells respond to their microenvironment which is comparable size to the cells. The macroscale features of three dimensional (3D) printing struts (PS) typically result in whole cell contact guidance (CCG). In contrast, at the nanoscale, where features are similar size to receptors of the cells, the response of cells is more complex. In detail, integrin that is one of the cellular receptors involved with cell adhesion is recognized as communication channels through that the cells interact with adjacent surface features...
March 21, 2018: ACS Applied Materials & Interfaces
Masanori Kawakami, Lisa Maria Mustachio, Xi Liu, Ethan Dmitrovsky
Cancer cells often have supernumerary centrosomes that promote genomic instability, a pathognomonic feature of cancer. During mitosis, cancer cells with supernumerary centrosomes undergo bipolar cell division by clustering centrosomes into two poles. When supernumerary centrosome clustering is antagonized, cancer cells are forced to undergo multipolar division leading to death of daughter cells. This proapoptotic pathway, called anaphase catastrophe, preferentially eliminates aneuploid cancer cells and malignant tumors in engineered mouse models...
March 20, 2018: Molecular Cancer Therapeutics
Michael Mader, Valerie Jerome, Ruth Freitag, Seema Agarwal, Andreas Greiner
Ultraporous, biodegradable sponges made of either polylactide or of blends of polylactide/poly(ε caprolactone) are prepared by freeze-drying of dispersions of short electrospun fibers and subsequent thermal annealing. The sponges feature ultrahigh porosity (99.6 %), a hierarchical cellular structure, and high reversible compressibility with fast recovery from deformation in the dry as well as in wet state. The sponge properties depend on the fiber dispersion concentration and the annealing temperature. Sponge characteristics like fiber density (2...
March 20, 2018: Biomacromolecules
He Liu, Yue Gu, Tao Dong, Liuqing Yan, Xiaoyi Yan, Tingting Zhang, Nannan Lu, Zhiqian Xu, Haixin Xu, Zhiquan Zhang, Ting Bian
The combination of nanoparticles and biomarkers yields functional nanostructured biointerface, which is playing a notable role in biotechnology development. Due to the 5-fold twined structure in the Au-Pt star-shaped decahedra not only allowed it to act as efficient scaffold for immobilization of antibody, but it also exhibits superior electrocatalytic activity toward H2 O2 reduction, the nanocrystal as the efficient signal transduction label is first employed to construct an electrochemical immunosensor. Donor-π-Acceptor (D-π-A) linking fashion generates a dipolar push-pull system and assures superior intramolecular charge transfer...
March 13, 2018: Biosensors & Bioelectronics
Junjie Yan, Yue Lu, Guojun Chen, Min Yang, Zhen Gu
To date, liquid metals have been widely applied in many fields such as electronics, mechanical engineering and energy. In the last decade, with a better understanding of the physicochemical properties such as low viscosity, good fluidity, high thermal/electrical conductivity and good biocompatibility, gallium and gallium-based low-melting-point (near or below physiological temperature) alloys have attracted considerable attention in bio-related applications. This tutorial review introduces the common performances of liquid metals, highlights their featured properties, as well as summarizes various state-of-the-art bio-applications involving carriers for drug delivery, molecular imaging, cancer therapy and biomedical devices...
March 20, 2018: Chemical Society Reviews
Forouzan Mohamadi, Somayeh Ebrahimi-Barough, Mohammad Reza Nourani, Akbar Ahmadi, Jafar Ai
Regeneration of peripheral nerve defects remained a remarkable clinical challenge. Engineered nerve conduits represent a promising strategy to improve functional recovery in peripheral nerve injury repair. However, nerve conduits require additional factors such as neurotrophic factors to create a more conducive microenvironment for nerve regeneration. Neurotrophic factors have well-demonstrated abilities to improve neurite outgrowth, making them great candidates for repairing of defected nerves. To this end, we examined the beneficial effects of repairing the transected rat sciatic nerve by loading of nerve growth factor (NGF) in nerve conduits...
March 20, 2018: Artificial Cells, Nanomedicine, and Biotechnology
Soojin Park, Murad Megjhani, Hans-Peter Frey, Edouard Grave, Chris Wiggins, Kalijah L Terilli, David J Roh, Angela Velazquez, Sachin Agarwal, E Sander Connolly, J Michael Schmidt, Jan Claassen, Noemie Elhadad
To develop and validate a prediction model for delayed cerebral ischemia (DCI) after subarachnoid hemorrhage (SAH) using a temporal unsupervised feature engineering approach, demonstrating improved precision over standard features. 488 consecutive SAH admissions from 2006 to 2014 to a tertiary care hospital were included. Models were trained on 80%, while 20% were set aside for validation testing. Baseline information and standard grading scales were evaluated: age, sex, Hunt Hess grade, modified Fisher Scale (mFS), and Glasgow Coma Scale (GCS)...
March 20, 2018: Journal of Clinical Monitoring and Computing
Oguzhan Alagoz, Mehmet Ali Ergun, Mucahit Cevik, Brian L Sprague, Dennis G Fryback, Ronald E Gangnon, John M Hampton, Natasha K Stout, Amy Trentham-Dietz
The University of Wisconsin Breast Cancer Epidemiology Simulation Model (UWBCS), also referred to as Model W, is a discrete-event microsimulation model that uses a systems engineering approach to replicate breast cancer epidemiology in the US over time. This population-based model simulates the lifetimes of individual women through 4 main model components: breast cancer natural history, detection, treatment, and mortality. A key feature of the UWBCS is that, in addition to specifying a population distribution in tumor growth rates, the model allows for heterogeneity in tumor behavior, with some tumors having limited malignant potential (i...
April 2018: Medical Decision Making: An International Journal of the Society for Medical Decision Making
Mads Gilbert
BACKGROUND: The atrocities in Syria have been covered in the four general medical weekly journals in the USA and the UK. Medical journal articles addressing political determinants of public health have rightly described and criticised the international community's failure to enforce humanitarian law while urging global bodies of power to ensure protection of civilians and civilian infrastructure and medical services. Discussions of the political influences on health of people in the occupied Palestinian territory (West Bank and Gaza Strip) seem to be considered politically out-of-bounds by some medical journals...
February 21, 2018: Lancet
Huanyu Jin, Chunxian Guo, Xin Liu, Jinlong Liu, Anthony Vasileff, Yan Jiao, Yao Zheng, Shi-Zhang Qiao
Over the past few decades, the design and development of advanced electrocatalysts for efficient energy conversion technologies have been subjects of extensive study. With the discovery of graphene, two-dimensional (2D) nanomaterials have emerged as some of the most promising candidates for heterogeneous electrocatalysts due to their unique physical, chemical, and electronic properties. Here, we review 2D-nanomaterial-based electrocatalysts for selected electrocatalytic processes. We first discuss the unique advances in 2D electrocatalysts based on different compositions and functions followed by specific design principles...
March 19, 2018: Chemical Reviews
Khushbu Shah, Sudhir Raghavan, Zhanjun Hou, Larry H Matherly, Aleem Gangjee
All clinically used antifolates lack transport selectivity for tumors over normal cells resulting in dose-limiting toxicities. There is growing interest in developing novel tumor-targeted cytotoxic antifolates with selective transport into tumors over normal cells via the proton-coupled folate transporter (PCFT) over the ubiquitously expressed reduced folate carrier (RFC). A lack of X-ray crystal structures or predictive models for PCFT or RFC has hindered structure-aided drug design for PCFT-selective therapeutics...
February 20, 2018: Journal of Molecular Graphics & Modelling
Sònia Font Tellado, Silvia Chiera, Walter Bonani, Patrina S P Poh, Claudio Migliaresi, Antonella Motta, Elizabeth R Balmayor, Martijn van Griensven
The tendon/ligament-to-bone transition (enthesis) is a highly specialized interface tissue with structural gradients of extracellular matrix composition, collagen molecule alignment and mineralization. These structural features are essential for enthesis function, but are often not regenerated after injury. Tissue engineering is a promising strategy for enthesis repair. Engineering of complex tissue interfaces such as the enthesis is likely to require a combination of biophysical, biological and chemical cues to achieve functional tissue regeneration...
March 14, 2018: Acta Biomaterialia
Robert Sidney Cox, Curtis Madsen, James McLaughlin, Tramy Nguyen, Nicholas Roehner, Bryan Bartley, Swapnil Bhatia, Mike Bissell, Kevin Clancy, Thomas Gorochowski, Raik Grünberg, Augustin Luna, Nicolas Le Novere, Matthew Pocock, Herbert Sauro, John T Sexton, Guy-Bart Stan, Jeffrey J Tabor, Christopher A Voigt, Zach Zundel, Chris Myers, Jacob Beal, Anil Wipat
People who are engineering biological organisms often find it useful to communicate in diagrams, both about the structure of the nucleic acid sequences that they are engineering and about the functional relationships between sequence features and other molecular species. Some typical practices and conventions have begun to emerge for such diagrams. The Synthetic Biology Open Language Visual (SBOL Visual) has been developed as a standard for organizing and systematizing such conventions in order to produce a coherent language for expressing the structure and function of genetic designs...
March 19, 2018: Journal of Integrative Bioinformatics
Marika Ziesack, Nathan Rollins, Aashna Shah, Brendon Dusel, Gordon Webster, Pamela A Silver, Jeffrey C Way
Medium-chain fatty acids are commodity chemicals. Increasing and modifying the activity of thioesterases (TEs) on medium chain fatty acyl-ACP esters may enable high yield microbial production of these molecules. The plant Cuphea palustris harbors two distinct TEs: Cp FatB1 (C8 -specificity, lower activity) and Cp FatB2 (C14 -specificity, higher activity) with 78% sequence identity. We combined structural features from these two enzymes to create several chimeric TEs, some of which showed non-natural fatty acid production as measured by an enzymatic assay and GC-MS...
March 16, 2018: Applied and Environmental Microbiology
Michael Kohlstedt, Sören Starck, Nadja Barton, Jessica Stolzenberger, Mirjam Selzer, Kerstin Mehlmann, Roland Schneider, Daniel Pleissner, Jan Rinkel, Jeroen S Dickschat, Joachim Venus, Jozef N J H van Duuren, Christoph Wittmann
Cis,cis-muconic acid (MA) is a chemical that is recognized for its industrial value and is synthetically accessible from aromatic compounds. This feature provides the attractive possibility of producing MA from mixtures of aromatics found in depolymerized lignin, the most underutilized lignocellulosic biopolymer. Based on the metabolic pathway, the catechol (1,2-dihydroxybenzene) node is the central element of this type of production process: (i) all upper catabolic pathways of aromatics converge at catechol as the central intermediate, (ii) catechol itself is frequently generated during lignin pre-processing, and (iii) catechol is directly converted to the target product MA by catechol 1,2-dioxygenase...
March 13, 2018: Metabolic Engineering
Pejman Tahmasebi
Accurate characterization of heterogeneous materials is of great importance for different fields of science and engineering. Such a goal can be achieved through imaging. Acquiring three- or two-dimensional images under different conditions is not, however, always plausible. On the other hand, accurate characterization of complex and multiphase materials requires various digital images (I) under different conditions. An ensemble method is presented that can take one single (or a set of) I(s) and stochastically produce several similar models of the given disordered material...
February 2018: Physical Review. E
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