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https://www.readbyqxmd.com/read/29334369/dual-gene-activation-and-knockout-screen-reveals-directional-dependencies-in-genetic-networks
#1
Michael Boettcher, Ruilin Tian, James A Blau, Evan Markegard, Ryan T Wagner, David Wu, Xiulei Mo, Anne Biton, Noah Zaitlen, Haian Fu, Frank McCormick, Martin Kampmann, Michael T McManus
Understanding the direction of information flow is essential for characterizing how genetic networks affect phenotypes. However, methods to find genetic interactions largely fail to reveal directional dependencies. We combine two orthogonal Cas9 proteins from Streptococcus pyogenes and Staphylococcus aureus to carry out a dual screen in which one gene is activated while a second gene is deleted in the same cell. We analyze the quantitative effects of activation and knockout to calculate genetic interaction and directionality scores for each gene pair...
January 15, 2018: Nature Biotechnology
https://www.readbyqxmd.com/read/29334075/classifying-vortex-wakes-using-neural-networks
#2
Brendan Colvert, Mohamad Alsalman, Eva Kanso
Unsteady flows contain information about the objects creating them. Aquatic organisms offer intriguing paradigms for extracting flow information using local sensory measurements. In contrast, classical methods for flow analysis require global knowledge of the flow field. Here, we train neural networks to classify flow patterns using local vorticity measurements. Specifically, we consider vortex wakes behind an oscillating airfoil and we evaluate the accuracy of the network in distinguishing between three wake types, 2S, 2P+2S and 2P+4S...
January 15, 2018: Bioinspiration & Biomimetics
https://www.readbyqxmd.com/read/29331894/pharmaceutical-concentration-variability-at-sewage-treatment-plant-outlets-dominated-by-hydrology-and-other-factors
#3
Andrea F Brunsch, Thomas L Ter Laak, Huub Rijnaarts, Ekkehard Christoffels
A study was conducted in which the effluent at four small to medium sized sewage treatment plants (STP) in North Rhine-Westphalia, Germany was monitored for three pharmaceutical compounds (carbamazepine, diclofenac, metoprolol) over a period of four years. Grab sampling and auto sampling campaigns were accomplished with respect to various weather conditions in the catchment area. Flow volumes and hydraulic retention times (HRT) from various sampling dates which provide information on processes causing emission changes were additionally taken into account...
January 11, 2018: Environmental Pollution
https://www.readbyqxmd.com/read/29331834/land-water-food-nexus-and-indications-of-crop-adjustment-for-water-shortage-solution
#4
Dandan Ren, Yonghui Yang, Yanmin Yang, Keith Richards, Xinyao Zhou
While agriculture places the greatest demand on water resources, increasing agricultural production is worsening a global water shortage. Reducing the cultivation of water-consuming crops may be the most effective way to reduce agricultural water use. However, when also taking food demand into consideration, sustaining the balance between regional water and food securities is a growing challenge. This paper addresses this task for regions where water is unsustainable for food production (Beijing-Tianjin-Hebei Region for example) by: (i) assessing the different effects of wheat and maize on water use; (ii) analyzing virtual water and virtual land flows associated with food imports and exports between Beijing-Tianjin-Hebei and elsewhere in China; (iii) identifying sub-regions where grain is produced using scarce water resources but exported to other regions; and (iv) analyzing the potentiality for mitigating water shortage via Land-Water-Food Nexus...
January 11, 2018: Science of the Total Environment
https://www.readbyqxmd.com/read/29331053/renal-flow-and-microstructure-anisotropy-refmap-mri-in-normal-and-peritumoral-renal-tissue
#5
Andrea L Liu, Artem Mikheev, Henry Rusinek, William C Huang, James S Wysock, James S Babb, Thorsten Feiweier, David Stoffel, Hersh Chandarana, Eric E Sigmund
BACKGROUND: Diffusion-weighted imaging (DWI) provides insight into the pathophysiology underlying renal dysfunction. Variants of DWI include intravoxel incoherent motion (IVIM), which differentiates between microstructural diffusion and vascular or tubular flow, and diffusion tensor imaging (DTI), which quantifies diffusion directionality. PURPOSE: To investigate the reproducibility of joint IVIM-DTI and compare controls to presurgical renal mass patients. STUDY TYPE: Prospective cross-sectional...
January 13, 2018: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/29330991/diaphyseal-nutrient-foramina-in-dried-human-adult-long-bones-of-lower-limb-in-pakistan
#6
Ejaz Afzal, Fatima Sherin, Omair Khan, Noaman Hussain Siddiqui
BACKGROUND: osteogenesis needs circulation of blood in the bones. Bone growth, repair of fracture, maintenance of bone vitality and other injures also need blood circulation in proper way. Blood is allowed to flow via holes in the diaphysis, which are called as nutrient foramina. METHODS: The crosssectional study was done in the department of Anatomy, Ayub and Khyber Medical College (Osteology Sections). The aim was to observe diaphyseal nutrient foramina in the human long bones of the lower limb...
October 2017: Journal of Ayub Medical College, Abbottabad: JAMC
https://www.readbyqxmd.com/read/29329818/hybrid-imaging-in-ischemic-heart-disease
#7
Andreas A Giannopoulos, Oliver Gaemperli
Hybrid imaging for ischemic heart disease refers to the fusion of information from a single or usually from multiple cardiovascular imaging modalities enabling synergistic assessment of the presence, the extent, and the severity of coronary atherosclerotic disease along with the hemodynamic significance of lesions and/or with evaluation of the myocardial function. A combination of coronary computed tomography angiography with myocardial perfusion imaging, such as single-photon emission computed tomography and positron emission tomography, has been adopted in several centers and implemented in international coronary artery disease management guidelines...
January 9, 2018: Revista Española de Cardiología
https://www.readbyqxmd.com/read/29329053/long-term-safety-area-tracking-lt-sat-with-online-failure-detection-and-recovery-for-robotic-minimally-invasive-surgery
#8
Veronica Penza, Xiaofei Du, Danail Stoyanov, Antonello Forgione, Leonardo S Mattos, Elena De Momi
Despite the benefits introduced by robotic systems in abdominal Minimally Invasive Surgery (MIS), major complications can still affect the outcome of the procedure, such as intra-operative bleeding. One of the causes is attributed to accidental damages to arteries or veins by the surgical tools, and some of the possible risk factors are related to the lack of sub-surface visibilty. Assistive tools guiding the surgical gestures to prevent these kind of injuries would represent a relevant step towards safer clinical procedures...
December 22, 2017: Medical Image Analysis
https://www.readbyqxmd.com/read/29328657/molecular-mechanism-of-protein-unfolding-under-shear-a-lattice-boltzmann-molecular-dynamics-study
#9
Fabio Sterpone, Philippe Derreumaux, Simone Melchionna
Proteins are marginally stable soft-matter entities that can be disrupted using a variety of perturbative stresses, including thermal, chemicals or mechanical ones. Fluid under extreme flow conditions is a possible route to probe the weakness of biomolecules and collect information on the molecular cohesive interactions that secure their stability. Moreover, in many cases, physiological flow triggers the functional response of specialised proteins as occurring in blood coagulation or cell adhesion. In this paper, we deploy the Lattice Boltzmann Molecular Dynamics technique based on the coarse grained model for protein OPEP, to study the mechanism of protein unfolding under Couette flow...
January 12, 2018: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29328505/substance-p-as-a-putative-efferent-transmitter-mediates-gabaergic-inhibition-in-mouse-taste-buds
#10
Anthony Y Huang, Sandy Y Wu
BACKGROUND AND PURPOSE: Capsaicin-mediated modulation on taste nerve responses is thought to be produced indirectly by actions of neuropeptides, e.g., calcitonin gene-related peptide (CGRP) and substance P (SP), onto taste cells implying playing a role in taste sensitivity. During processing gustatory information in taste buds, CGRP shapes peripheral taste signals via serotonergic signaling. The underlying assumption has been that SP exerts its effects on taste transmitter secretion in taste buds of mice...
January 12, 2018: British Journal of Pharmacology
https://www.readbyqxmd.com/read/29328441/ubenimex-an-apn-inhibitor-could-serve-as-an-anti%C3%A2-tumor-drug-in-rt112-and-5637-cells-by-operating-in-an-akt%C3%A2-associated-manner
#11
Xiaoqing Wang, Yang Liu, Wei Liu, Yongfei Zhang, Feng Guo, Lijuan Zhang, Mingyu Cui, Shuai Liu, Rongde Wu
Bladder cancer, a common urinary tract tumor, has high mortality and recurrence rates associated with metastasis. Aminopeptidase N (APN) expression and metastasis have been indicated to be associated with one another. Ubenimex may function as an APN inhibitor to inhibit the degradation of the extracellular matrix during tumorigenesis. Furthermore, APN has been widely used as an adjuvant therapy for the treatment of tumors; however, little information is available regarding the impact of ubenimex on patients...
January 9, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29328067/a-physical-approach-to-model-occlusions-in-the-retinal-microvasculature
#12
O Fleck, T Savin
Blood occlusions in the retinal microvasculature contribute to the pathology of many disease states within the eye. These events can cause haemorrhaging and retinal detachment, leading to a loss of vision in the affected patient. Here, we present a physical approach to characterising the collective cell dynamics leading to plug formation, through the use of a bespoke microfluidic device, and through the derivation of a probabilistic model. Our microfluidic device is based on a filtration design that can tune the particle volume fraction of a flowing suspension within a conduit, with sizes similar to arterioles...
January 12, 2018: Eye
https://www.readbyqxmd.com/read/29328033/-elemental-status-of-patients-with-various-forms-of-vitiligo
#13
N I Tsiskarishvili, A Katsitadze, N V Tsiskarishvili, I Charischarishvili
Vitiligo is a multifactorial disease in which, in each specific case of its manifestation, different mechanisms of its pathogenesis and different levels of melanin formation in the skin can be involved. Skin is one of the most metabolically active organs. Carrying out a number of vital functions (barrier, protective, respiratory, excretory, metabolic, immune, etc.), it needs microelementss. Of the 92 naturally occurring chemical elements, 81 are found in the human body. Lack of the vital elements, leads to the emergence of diseases, which are based on deficiency, excess or imbalance of micro- and macroelements in the body...
December 2017: Georgian Medical News
https://www.readbyqxmd.com/read/29327266/social-targets-improve-body-based-and-environment-based-strategies-during-spatial-navigation
#14
Esther Kuehn, Xiaoli Chen, Pia Geise, Jan Oltmer, Thomas Wolbers
Encoding the position of another person in space is vital for everyday life. Nevertheless, little is known about the specific navigational strategies associated with encoding the position of another person in the wider spatial environment. We asked two groups of participants to learn the location of a target (person or object) during active navigation, while optic flow information, a landmark, or both optic flow information and a landmark were available in a virtual environment. Whereas optic flow information is used for body-based encoding, such as the simulation of motor movements, landmarks are used to form an abstract, disembodied representation of the environment...
January 11, 2018: Experimental Brain Research. Experimentelle Hirnforschung. Expérimentation Cérébrale
https://www.readbyqxmd.com/read/29327161/effects-of-channel-blocking-on-information-transmission-and-energy-efficiency-in-squid-giant-axons
#15
Yujiang Liu, Yuan Yue, Yuguo Yu, Liwei Liu, Lianchun Yu
Action potentials are the information carriers of neural systems. The generation of action potentials involves the cooperative opening and closing of sodium and potassium channels. This process is metabolically expensive because the ions flowing through open channels need to be restored to maintain concentration gradients of these ions. Toxins like tetraethylammonium can block working ion channels, thus affecting the function and energy cost of neurons. In this paper, by computer simulation of the Hodgkin-Huxley neuron model, we studied the effects of channel blocking with toxins on the information transmission and energy efficiency in squid giant axons...
January 11, 2018: Journal of Computational Neuroscience
https://www.readbyqxmd.com/read/29325588/milk-flow-data-collected-routinely-in-an-automatic-milking-system-an-alternative-to-milking-time-testing-in-the-management-of-teat-end-condition
#16
Håvard Nørstebø, Amira Rachah, Gunnar Dalen, Odd Rønningen, Anne Cathrine Whist, Olav Reksen
BACKGROUND: Having a poor teat-end condition is associated with increased mastitis risk, hence avoiding milking machine settings that have a negative effect on teat-end condition is important for successful dairy production. Milking-time testing (MTT) can be used in the evaluation of vacuum conditions during milking, but the method is less suited for herds using automatic milking systems (AMS) and relationships with teat end condition is poorly described. This study aimed to increase knowledge on interpretation of MTT in AMS and to assess whether milk-flow data obtained routinely by an AMS can be useful for the management of teat-end health...
January 11, 2018: Acta Veterinaria Scandinavica
https://www.readbyqxmd.com/read/29324559/nurse-experiences-of-medication-administration-to-people-with-swallowing-difficulties-living-in-aged-care-facilities-a-systematic-review-of-qualitative-evidence
#17
Aida Sefidani Forough, Simon Y M Wong, Esther T L Lau, Jose Manuel Serrano Santos, Greg J Kyle, Kathryn J Steadman, Julie A Y Cichero, Lisa M Nissen
OBJECTIVE: To identify nurses' experiences of administering oral medications to residents of aged care facilities (ACFs) with swallowing difficulties. INTRODUCTION: Administering medicines to older people with swallowing difficulties is a challenging task. Nurses frequently modify oral medications e.g. by crushing/splitting tablets or opening capsules, to facilitate the administration process. These practices are associated with an increased risk of medication administration errors...
January 2018: JBI Database of Systematic Reviews and Implementation Reports
https://www.readbyqxmd.com/read/29323226/lateral-and-basal-amygdala-account-for-opposite-behavioral-responses-during-the-long-term-expression-of-fearful-memories
#18
Eugenio Manassero, Annamaria Renna, Luisella Milano, Benedetto Sacchetti
Memories of fearful events can be maintained throughout the lifetime of animals. Here we showed that lesions of the lateral nucleus (LA) performed shortly after training impaired the retention of long-term memories, assessed by the concomitant measurement of two dissociable defensive responses, freezing and avoidance in rats. Strikingly, when LA lesions were performed four weeks after training, rats did not show freezing to a learned threat stimulus, but they were able to direct their responses away from it...
January 11, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29322458/a-flow-cytometry-method-for-assessing-m-tuberculosis-responses-to-antibiotics
#19
Charlotte L Hendon-Dunn, Stephen R Thomas, Stephen C Taylor, Joanna Bacon
Traditional drug susceptibility methods can take several days or weeks of incubation between drug exposure and confirmation of sensitivity or resistance. In addition, these methods do not capture information about viable organisms that are not immediately culturable after drug exposure. Here, we present a rapid fluorescence detection method for assessing the susceptibility of M. tuberculosis to antibiotics. Fluorescent markers Calcein violet-AM and SYTOX-green are used for measuring cell viability or cell death and to capture information about the susceptibility of the whole population and not just those bacteria that can grow in media postexposure...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29321874/conservation-planning-for-freshwater-marine-carryover-effects-on-chinook-salmon-survival
#20
Jennifer L Gosselin, Richard W Zabel, James J Anderson, James R Faulkner, António M Baptista, Benjamin P Sandford
Experiences of migratory species in one habitat may affect their survival in the next habitat, in what is known as carryover effects. These effects are especially relevant for understanding how freshwater experience affects survival in anadromous fishes. Here, we study the carryover effects of juvenile salmon passage through a hydropower system (Snake and Columbia rivers, northwestern United States). To reduce the direct effect of hydrosystem passage on juveniles, some fishes are transported through the hydrosystem in barges, while the others are allowed to migrate in-river...
January 2018: Ecology and Evolution
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