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https://www.readbyqxmd.com/read/28447635/a-chromosome-conformation-capture-ordered-sequence-of-the-barley-genome
#1
Martin Mascher, Heidrun Gundlach, Axel Himmelbach, Sebastian Beier, Sven O Twardziok, Thomas Wicker, Volodymyr Radchuk, Christoph Dockter, Pete E Hedley, Joanne Russell, Micha Bayer, Luke Ramsay, Hui Liu, Georg Haberer, Xiao-Qi Zhang, Qisen Zhang, Roberto A Barrero, Lin Li, Stefan Taudien, Marco Groth, Marius Felder, Alex Hastie, Hana Šimková, Helena Staňková, Jan Vrána, Saki Chan, María Muñoz-Amatriaín, Rachid Ounit, Steve Wanamaker, Daniel Bolser, Christian Colmsee, Thomas Schmutzer, Lala Aliyeva-Schnorr, Stefano Grasso, Jaakko Tanskanen, Anna Chailyan, Dharanya Sampath, Darren Heavens, Leah Clissold, Sujie Cao, Brett Chapman, Fei Dai, Yong Han, Hua Li, Xuan Li, Chongyun Lin, John K McCooke, Cong Tan, Penghao Wang, Songbo Wang, Shuya Yin, Gaofeng Zhou, Jesse A Poland, Matthew I Bellgard, Ljudmilla Borisjuk, Andreas Houben, Jaroslav Doležel, Sarah Ayling, Stefano Lonardi, Paul Kersey, Peter Langridge, Gary J Muehlbauer, Matthew D Clark, Mario Caccamo, Alan H Schulman, Klaus F X Mayer, Matthias Platzer, Timothy J Close, Uwe Scholz, Mats Hansson, Guoping Zhang, Ilka Braumann, Manuel Spannagl, Chengdao Li, Robbie Waugh, Nils Stein
Cereal grasses of the Triticeae tribe have been the major food source in temperate regions since the dawn of agriculture. Their large genomes are characterized by a high content of repetitive elements and large pericentromeric regions that are virtually devoid of meiotic recombination. Here we present a high-quality reference genome assembly for barley (Hordeum vulgare L.). We use chromosome conformation capture mapping to derive the linear order of sequences across the pericentromeric space and to investigate the spatial organization of chromatin in the nucleus at megabase resolution...
April 26, 2017: Nature
https://www.readbyqxmd.com/read/28437962/rapidly-reconfigurable-high-fidelity-optical-arbitrary-waveform-generation-in-heterogeneous-photonic-integrated-circuits
#2
Shaoqi Feng, Chuan Qin, Kuanping Shang, Shibnath Pathak, Weicheng Lai, Binbin Guan, Matthew Clements, Tiehui Su, Guangyao Liu, Hongbo Lu, Ryan P Scott, S J Ben Yoo
This paper demonstrates rapidly reconfigurable, high-fidelity optical arbitrary waveform generation (OAWG) in a heterogeneous photonic integrated circuit (PIC). The heterogeneous PIC combines advantages of high-speed indium phosphide (InP) modulators and low-loss, high-contrast silicon nitride (Si<sub>3</sub>N<sub>4</sub>) arrayed waveguide gratings (AWGs) so that high-fidelity optical waveform syntheses with rapid waveform updates are possible. The generated optical waveforms spanned a 160 GHz spectral bandwidth starting from an optical frequency comb consisting of eight comb lines separated by 20 GHz channel spacing...
April 17, 2017: Optics Express
https://www.readbyqxmd.com/read/28436782/subverting-space-an-exploration-of-a-dance-therapy-workshop-apparatus-for-schizophrenics
#3
Silvia Lippi, Laetitia Petit
The authors created a dance workshop for schizophrenic patients designed to address their singular experience of space, in which the categories of interior and exterior do not function as limits. The space of the workshop, which, paradoxically, is thought in terms of the psychic space of schizophrenic patients by playing on its borderless quality, creates a continuity between the psychiatric hospital and the external world, and thus helps to prevent the segregation and isolation of such patients. This continuity is established on the basis of both the physical architecture of the workshop setting and the practice of dancing itself...
April 2017: Psychoanalytic Review
https://www.readbyqxmd.com/read/28419527/the-rectosigmoid-brake-review-of-an-emerging-neuromodulation-target-for-colorectal-functional-disorders
#4
Anthony Y Lin, Phil G Dinning, Tony Milne, Ian P Bissett, Gregory O'Grady
The regulation of gastrointestinal motility encompasses several overlapping mechanisms including highly regulated and coordinated neurohormonal circuits. Various feedback mechanisms or 'brakes' have been proposed. While duodenal, jejunal, and ileal brakes are well described, a putative distal colonic brake is less well defined. Despite the high prevalence of colonic motility disorders, there is little knowledge of colonic motility owing to difficulties with organ access and technical difficulties in recording detailed motor patterns along its entire length...
April 16, 2017: Clinical and Experimental Pharmacology & Physiology
https://www.readbyqxmd.com/read/28411155/trial-timing-and-pattern-information-analyses-of-fmri-data
#5
Dagmar Zeithamova, Maria-Alejandra de Araujo Sanchez, Anisha Adke
Pattern-information approaches to fMRI data analysis are becoming increasingly popular but few studies to date have investigated experimental design optimization for these analyses. Here, we tested several designs that varied in the number of trials and trial timing within fixed duration scans while participants encoded images of animals and tools. Trial timing conditions with fixed onset-to-onset timing ranged from slow 12-second trials with two repetitions of each item to quick 6-second trials with four repetitions per item...
April 11, 2017: NeuroImage
https://www.readbyqxmd.com/read/28398001/an-update-on-carbon-nanotube-enabled-x-ray-sources-for-biomedical-imaging
#6
REVIEW
Connor Puett, Christina Inscoe, Allison Hartman, Jabari Calliste, Dora K Franceschi, Jianping Lu, Otto Zhou, Yueh Z Lee
A new imaging technology has emerged that uses carbon nanotubes (CNT) as the electron emitter (cathode) for the X-ray tube. Since the performance of the CNT cathode is controlled by simple voltage manipulation, CNT-enabled X-ray sources are ideal for the repetitive imaging steps needed to capture three-dimensional information. As such, they have allowed the development of a gated micro-computed tomography (CT) scanner for small animal research as well as stationary tomosynthesis, an experimental technology for large field-of-view human imaging...
April 11, 2017: Wiley Interdisciplinary Reviews. Nanomedicine and Nanobiotechnology
https://www.readbyqxmd.com/read/28382317/probing-ultra-fast-processes-with-high-dynamic-range-at-4th-generation-light-sources-arrival-time-and-intensity-binning-at-unprecedented-repetition-rates
#7
S Kovalev, B Green, T Golz, S Maehrlein, N Stojanovic, A S Fisher, T Kampfrath, M Gensch
Understanding dynamics on ultrafast timescales enables unique and new insights into important processes in the materials and life sciences. In this respect, the fundamental pump-probe approach based on ultra-short photon pulses aims at the creation of stroboscopic movies. Performing such experiments at one of the many recently established accelerator-based 4th-generation light sources such as free-electron lasers or superradiant THz sources allows an enormous widening of the accessible parameter space for the excitation and/or probing light pulses...
March 2017: Structural Dynamics (Melville, N.Y.)
https://www.readbyqxmd.com/read/28375044/repetition-inhibition-and-facilitation-effects-for-visual-verbal-stimuli-under-conditions-of-concurrent-articulation
#8
Andrew J Johnson, Ryan Hawley, Christopher Miles
The present study examines the effects of within-sequence repetitions for visually presented consonants under conditions of quiet and concurrent articulation (CA). In an immediate serial recall (ISR) procedure, participants wrote down the 6-consonants in the order of original presentation. CA reduced serial recall and abolished the phonological similarity effect. However, the effects of within-trial repetitions were broadly similar under quiet and CA. Specifically, adjacent repetitions facilitated recall of the repeated item, whereas spaced repetitions (separated by 3-intervening items) impaired recall accuracy for the repeated item (i...
April 4, 2017: Quarterly Journal of Experimental Psychology: QJEP
https://www.readbyqxmd.com/read/28327745/dynamics-of-miura-patterned-foldable-sheets-in-shear-flow
#9
Sarit Dutta, Michael D Graham
We study the dynamics of piecewise rigid sheets containing predefined crease lines in shear flow. The crease lines act like hinge joints along which the sheet may fold rigidly, i.e. without bending any other crease line. We choose the crease lines such that they tessellate the sheet into a two-dimensional array of parallelograms. Specifically, we focus on a particular arrangement of crease lines known as a Miura-pattern in the origami community. When all the hinges are fully open the sheet is planar, whereas when all are closed the sheet folds over itself to form a compact flat structure...
March 22, 2017: Soft Matter
https://www.readbyqxmd.com/read/28323684/shifting-spatial-neglect-with-repeated-line-bisections-possible-role-of-lateralized-attentional-fatigue
#10
Mary Woods, John B Williamson, Keith D White, Charles G Maitland, Kenneth M Heilman
BACKGROUND AND OBJECTIVE: Many patients who have signs of neglect immediately after a right hemisphere stroke remain disabled even when they improve on tests of neglect. Few patients are tested for attentional persistence and fatigue despite their importance in many instrumental activities. To investigate whether stimulus repetition might alter the allocation of attention, we repeatedly tested a patient 16 weeks after she developed hemispatial neglect from a right hemisphere stroke. METHODS: During each of three testing sessions given in 1 day, we asked the patient to bisect 90 lines of two lengths, presented in 30-trial blocks in three locations: left, center, and right of her midsagittal plane, partially counterbalanced across sessions...
March 2017: Cognitive and Behavioral Neurology: Official Journal of the Society for Behavioral and Cognitive Neurology
https://www.readbyqxmd.com/read/28321873/disintegration-of-the-self-and-the-regeneration-of-psychic-skin-in-the-treatment-of-traumatized-refugees
#11
Monica Luci
This paper presents a tentative understanding of the characteristics of the extreme traumas, elsewhere called 'complex PTSD', that some refugees and asylum-seekers bring into therapy. It suggests that these kinds of traumas suffered during adulthood may involve a disintegration of the self and a loss of 'psychic skin'. This conceptualization is derived from the treatment of a refugee who survived multiple extreme traumas and with whom efforts were made in therapy to identify a complex methodology making use of supplementary therapeutic tools in addition to individual psychotherapy...
April 2017: Journal of Analytical Psychology
https://www.readbyqxmd.com/read/28315315/connectivity-among-photosystem-ii-centers-in-phytoplankters-patterns-and-responses
#12
Kui Xu, Jessica L Grant-Burt, Natalie Donaher, Douglas A Campbell
Fast Repetition and Relaxation chlorophyll fluorescence induction is used to estimate the effective absorption cross section of PSII (σPSII), to analyze phytoplankton acclimation and electron transport. The fitting coefficient ρ measures excitation transfer from closed PSII to remaining open PSII upon illumination, which could theoretically generate a progressive increase in σPSII for the remaining open PSII. To investigate how ρ responds to illumination we grew marine phytoplankters with diverse antenna structures (Prochlorococcus, Synechococcus, Ostreococcus and Thalassiosira pseudonana) under limiting or saturating growth light...
March 14, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28285571/prospective-memory-intervention-using-visual-imagery-in-individuals-with-brain-injury
#13
Sarah A Raskin, Michael P Smith, Ginger Mills, Consuelo Pedro, Marta Zamroziewicz
Prospective memory deficits are common after brain injury and can create impediments to independent living. Most approaches to management of such deficits are compensatory, such as the use of notebooks or electronic devices. While these can be effective, a restorative approach, in theory, could lead to greater generalisation of treatment. In the current study a metacognitive technique, using visual imagery, was employed under conditions of rote repetition and spaced retrieval. Treatment was provided in an AB-BA crossover design with A as the active treatment and B as a no-treatment attention control to 20 individuals with brain injury...
March 12, 2017: Neuropsychological Rehabilitation
https://www.readbyqxmd.com/read/28281757/liesegang-mechanism-with-a-gradual-phase-transition
#14
Yushiro Shimizu, Jun Matsui, Kei Unoura, Hideki Nabika
We report a novel and generalized chemical model for the Liesegang mechanism that involves gradual phase transitions of macromolecules, unlike previous models that involved definite and discontinuous phase transitions. As a model system, an agarose gel medium doped with an initiator was contacted with a solution containing monomer 2-methoxyethyl acrylate (MEA), in which monomers diffused into the gel medium and initiated a polymerization reaction. As there is a monomer concentration gradient along the diffusion direction, the degree of polymerization and the corresponding degree of insolubility showed a similar spatial gradient in the reaction medium because molecular solubility gradually changes from soluble to insoluble with an increase in the degree of polymerization...
March 15, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28276975/hebb-repetition-effects-for-non-verbal-visual-sequences-determinants-of-sequence-acquisition
#15
Andrew J Johnson, Artur Dygacz, Christopher Miles
We report four experiments premised upon the work of Horton et al. [(2008). Hebb repetition effects in visual memory: The roles of verbal rehearsal and distinctiveness. Quarterly Journal of Experimental Psychology, 61(12), 1769-1777] and Page et al. [(2013). Repetition-spacing and item-overlap effects in the Hebb repetition task. Journal of Memory and Language, 69(4), 506-526], and explore conditions under which the visual Hebb repetition effect is observed. Experiment 1 showed that repetition learning is evident when the items comprising the non-repeated (filler) sequences and the repeated (Hebb) sequences are different (no-overlap)...
February 28, 2017: Memory
https://www.readbyqxmd.com/read/28268630/decoding-movement-direction-using-phase-space-analysis-of-hemodynamic-responses-to-arm-movements-based-on-functional-near-infrared-spectroscopy
#16
Nicoladie Tam, Luca Pollonini, George Zouridakis
In this study we applied phase-space analysis on the hemodynamic signals recorded from the motor cortex of human subjects using functional near infrared spectroscopy (fNIRS) to decode the direction of intentional hand movements. Our goal is to develop a brain-computer-interface (BCI) based on optical imaging that can control a wheelchair. To establish the relationship between the hemodynamic response and movement direction, participants were asked to perform repetitive arm movements in two orthogonal directions (right-left and front-back) on a horizontal plane, while the time course of the oxy-hemoglobin (oxy-Hb) and deoxy-hemoglobin (deoxy-Hb) responses were recorded...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28254594/the-current-status-of-research-on-chronic-traumatic-encephalopathy
#17
REVIEW
Kenneth Perrine, Jacqueline Helcer, Apostolos John Tsiouris, David J Pisapia, Philip Stieg
Chronic Traumatic Encephalopathy (CTE) evolved from the term "dementia pugilistica" describing the dementia found in many boxers to its current use in describing the dementia and depression sometimes found in athletes subjected to multiple concussions or sub-concussive blows to the head. Concurrently, the neuropathology evolved to specify a unique type of tauopathy found in perivascular spaces at the depth of sulci and other features not typically seen in neurodegenerative tauopathies. Four stages of CTE have been proposed, with four corresponding clinical syndromes of Traumatic Encephalopathy Syndrome...
February 27, 2017: World Neurosurgery
https://www.readbyqxmd.com/read/28249036/humpback-whale-super-groups-a-novel-low-latitude-feeding-behaviour-of-southern-hemisphere-humpback-whales-megaptera-novaeangliae-in-the-benguela-upwelling-system
#18
Ken P Findlay, S Mduduzi Seakamela, Michael A Meÿer, Stephen P Kirkman, Jaco Barendse, David E Cade, David Hurwitz, Amy S Kennedy, Pieter G H Kotze, Steven A McCue, Meredith Thornton, O Alejandra Vargas-Fonseca, Christopher G Wilke
Southern Hemisphere humpback whales (Megaptera novaeangliae) generally undertake annual migrations from polar summer feeding grounds to winter calving and nursery grounds in subtropical and tropical coastal waters. Evidence for such migrations arises from seasonality of historic whaling catches by latitude, Discovery and natural mark returns, and results of satellite tagging studies. Feeding is generally believed to be limited to the southern polar region, where Antarctic krill (Euphausia superba) has been identified as the primary prey item...
2017: PloS One
https://www.readbyqxmd.com/read/28235559/task-inhibition-conflict-and-the-n-2-repetition-cost-a-combined-computational-and-empirical-approach
#19
Nicholas J Sexton, Richard P Cooper
Task inhibition (also known as backward inhibition) is an hypothesised form of cognitive inhibition evident in multi-task situations, with the role of facilitating switching between multiple, competing tasks. This article presents a novel cognitive computational model of a backward inhibition mechanism. By combining aspects of previous cognitive models in task switching and conflict monitoring, the model instantiates the theoretical proposal that backward inhibition is the direct result of conflict between multiple task representations...
May 2017: Cognitive Psychology
https://www.readbyqxmd.com/read/28230735/new-evidence-for-the-theory-of-chromosome-organization-by-repetitive-elements-core
#20
Shao-Jun Tang
Repetitive DNA elements were proposed to coordinate chromatin folding and interaction in chromosomes by their intrinsic homology-based clustering ability. A recent analysis of the data sets from chromosome-conformation-capture experiments confirms the spatial clustering of DNA repeats of the same family in the nuclear space, and thus provides strong new support for the CORE theory.
February 20, 2017: Genes
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