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https://www.readbyqxmd.com/read/28330289/progress-in-genome-sequencing-will-accelerate-molecular-breeding-in-cotton-gossypium-spp
#1
REVIEW
Rong Yan, Chengzhen Liang, Zhigang Meng, Waqas Malik, Tao Zhu, Xuefeng Zong, Sandui Guo, Rui Zhang
Cotton (Gossypium spp.) is the single most important spinning fiber that has economic significance worldwide. Cotton is one of the most value-added crops and an excellent model system for the analysis of polyploidization and cell development. Thus, the Cotton Genome Consortium has made rapid and significant progress in whole genome sequencing studies in the last decade. Developments in cotton genome sequencing and assembly provide powerful tools for dissecting the genetic and molecular bases of agronomically important traits and establishing regulatory networks on these processes, which leads to molecular breeding...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28328502/spatial-statistics-for-segmenting-histological-structures-in-h-e-stained-tissue-images
#2
Luong Nguyen, A Burak Tosun, Jeffrey Fine, Adrian Lee, D Lansing Taylor, Chakra Chennubhotla
Segmenting a broad class of histological structures in transmitted light and/or fluorescence-based images is a prerequisite for determining the pathological basis of cancer, elucidating spatial interactions between histological structures in tumor microenvironments (e.g. tumor infiltrating lymphocytes), facilitating precision medicine studies with deep molecular profiling, and providing an exploratory tool for pathologists. Our paper focuses on segmenting histological structures in hematoxylin and eosin (H&E) stained images of breast tissues, e...
March 16, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28328315/analysis-of-protein-target-interactions-of-synthetic-mixtures-by-affinity-lc-ms
#3
Prachi Singh, Kalaipriya Madhaiyan, Minh-Dao Duong-Thi, Brian W Dymock, Sten Ohlson
Analysis of interactions between molecules is of fundamental importance in life science research. In this study, we applied weak affinity chromatography, based on high-performance liquid chromatography and mass spectrometry, as a powerful tool for direct analysis of the components of a chemical reaction mixture for their binding to a target protein. As a demonstration of the potential of this method, we analyzed the binding of the compounds of the reaction mixture to the chaperone heat shock protein 90 (Hsp90)...
April 2017: SLAS Discov
https://www.readbyqxmd.com/read/28328071/investigation-of-c3-s-hydration-mechanism-by-transmission-electron-microscope-tem-with-integrated-super-x-tm-eds-system
#4
Y Sakalli, R Trettin
Tricalciumsilicate (C3 S, Alite) is the major component of the Portland cement clinker. Hydration of Alite is decisive in influencing the properties of the resulting material. This is due to its high content in cement. The mechanism of the hydration of C3 S is very complicated and not yet fully understood. There are different models describing the hydration of C3 S in various ways. In this work for a better understanding of hydration mechanism, the hydrated C3 S was investigated by using the transmission electron microscope (TEM) and for the first time, the samples for the investigations were prepared by using of focused ion beam from sintered pellets of C3 S...
March 22, 2017: Journal of Microscopy
https://www.readbyqxmd.com/read/28327945/enhancing-knowledge-discovery-from-cancer-genomics-data-with-galaxy
#5
Marco A Albuquerque, Bruno M Grande, Elie J Ritch, Prasath Pararajalingam, Selin Jessa, Martin Krzywinski, Jasleen K Grewal, Sohrab P Shah, Paul C Boutros, Ryan D Morin
The field of cancer genomics has demonstrated the power of massively parallel sequencing techniques to inform on the genes and specific alterations that drive tumor onset and progression. Although large comprehensive sequence data sets continue to be made increasingly available, data analysis remains an ongoing challenge, particularly for laboratories lacking dedicated resources and bioinformatics expertise. To address this, we have produced a collection of Galaxy tools that represent many popular algorithms for detecting somatic genetic alterations from cancer genome and exome data...
March 9, 2017: GigaScience
https://www.readbyqxmd.com/read/28327383/sigueme-technology-based-intervention-for-low-functioning-autism-to-train-skills-to-work-with-visual-signifiers-and-concepts
#6
María Vélez-Coto, María José Rodríguez-Fórtiz, María Luisa Rodriguez-Almendros, Marcelino Cabrera-Cuevas, Carlos Rodríguez-Domínguez, Tomás Ruiz-López, Ángeles Burgos-Pulido, Inmaculada Garrido-Jiménez, Juan Martos-Pérez
BACKGROUND: People with low-functioning ASD and other disabilities often find it difficult to understand the symbols traditionally used in educational materials during the learning process. Technology-based interventions are becoming increasingly common, helping children with cognitive disabilities to perform academic tasks and improve their abilities and knowledge. Such children often find it difficult to perform certain tasks contained in educational materials since they lack necessary skills such as abstract reasoning...
March 16, 2017: Research in Developmental Disabilities
https://www.readbyqxmd.com/read/28327124/exploring-the-influence-of-cultural-orientations-on-assessment-of-communication-behaviours-during-patient-practitioner-interactions
#7
Kyle J Wilby, Marjan J B Govaerts, Zubin Austin, Diana H J M Dolmans
BACKGROUND: Research has shown that patients' and practitioners' cultural orientations affect communication behaviors and interpretations in cross-cultural patient-practitioner interactions. Little is known about the effect of cultural orientations on assessment of communication behaviors in cross-cultural educational settings. The purpose of this study is to explore cultural orientation as a potential source of assessor idiosyncrasy or between-assessor variability in assessment of communication skills...
March 21, 2017: BMC Medical Education
https://www.readbyqxmd.com/read/28327092/metax-a-flexible-and-comprehensive-software-for-processing-metabolomics-data
#8
Bo Wen, Zhanlong Mei, Chunwei Zeng, Siqi Liu
BACKGROUND: Non-targeted metabolomics based on mass spectrometry enables high-throughput profiling of the metabolites in a biological sample. The large amount of data generated from mass spectrometry requires intensive computational processing for annotation of mass spectra and identification of metabolites. Computational analysis tools that are fully integrated with multiple functions and are easily operated by users who lack extensive knowledge in programing are needed in this research field...
March 21, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28326789/evolution-of-nanoflowers-and-nanospheres-of-zinc-bisporphyrinate-tweezers-at-the-air-water-interface
#9
Fan Xie, Congcong Zhuo, Chuanjiang Hu, Ming Hua Liu
While the sophisticated Langmuir and Langmuir-Blodgett technique facilitates the fabrication of uniform ultrathin monolayer and films, it is also revealed as a powerful tool for the bottom-up constructions of the nanostructures through the air/water interface. In this paper, unique nanoflowers or nanospheres were constructed based on the synthesized m-phthalic diamide-linked Zinc bis-porphyrinate tweezers using the Langmuir and Langmuir-Blodgett (LB) technique. It was found that both the two tweezer type Zinc bisporphyrinates could form stable two-dimensional spreading films at the air/water interface, which could be subsequently transferred onto solid substrates by the vertical lifting method...
March 22, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28326549/the-three-finger-toxin-fold-a-multifunctional-structural-scaffold-able-to-modulate-cholinergic-functions
#10
REVIEW
Pascal Kessler, Pascale Marchot, Marcela Silva, Denis Servent
Three-finger fold toxins are miniproteins frequently found in Elapidae snake venoms. This fold is characterized by three distinct loops rich in β-strands and emerging from a dense, globular core reticulated by four highly conserved disulfide bridges. The number and diversity of receptors, channels, and enzymes identified as targets of three-finger fold toxins is increasing continuously. Such manifold diversity highlights the specific adaptability of this fold for generating pleiotropic functions. Although this toxin superfamily disturbs many biological functions by interacting with a large diversity of molecular targets, the most significant target is the cholinergic system...
March 21, 2017: Journal of Neurochemistry
https://www.readbyqxmd.com/read/28326490/virtual-reality-educational-tool-for-human-anatomy
#11
Santiago González Izard, Juan A Juanes Méndez, Pablo Ruisoto Palomera
Virtual Reality is becoming widespread in our society within very different areas, from industry to entertainment. It has many advantages in education as well, since it allows visualizing almost any object or going anywhere in a unique way. We will be focusing on medical education, and more specifically anatomy, where its use is especially interesting because it allows studying any structure of the human body by placing the user inside each one. By allowing virtual immersion in a body structure such as the interior of the cranium, stereoscopic vision goggles make these innovative teaching technologies a powerful tool for training in all areas of health sciences...
May 2017: Journal of Medical Systems
https://www.readbyqxmd.com/read/28326145/polyketide-stereocontrol-a-study-in-chemical-biology
#12
REVIEW
Kira J Weissman
The biosynthesis of reduced polyketides in bacteria by modular polyketide synthases (PKSs) proceeds with exquisite stereocontrol. As the stereochemistry is intimately linked to the strong bioactivity of these molecules, the origins of stereochemical control are of significant interest in attempts to create derivatives of these compounds by genetic engineering. In this review, we discuss the current state of knowledge regarding this key aspect of the biosynthetic pathways. Given that much of this information has been obtained using chemical biology tools, work in this area serves as a showcase for the power of this approach to provide answers to fundamental biological questions...
2017: Beilstein Journal of Organic Chemistry
https://www.readbyqxmd.com/read/28326011/the-virtual-trial
#13
Willem de Haan
Although brain network analysis in neurodegenerative disease is still a fairly young discipline, expectations are high. The robust theoretical basis, the straightforward detection and explanation of otherwise intangible complex system phenomena, and the correlations of network features with pathology and cognitive status are qualities that show the potential power of this new instrument. We expect "connectomics" to eventually better explain and predict that essential but still poorly understood aspect of dementia: the relation between pathology and cognitive symptoms...
2017: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/28325891/whole-exome-sequencing-identifies-a-novel-de-novo-mutation-in-dync1h1-in-epileptic-encephalopathies
#14
Zhongdong Lin, Zhenwei Liu, Xiucui Li, Feng Li, Ying Hu, Bingyu Chen, Zhen Wang, Yong Liu
Epileptic encephalopathies (EE) are a group of severe childhood epilepsy disorders characterized by intractable seizures, cognitive impairment and neurological deficits. Recent whole-exome sequencing (WES) studies have implicated significant contribution of de novo mutations to EE. In this study, we utilized WES for identifying causal de novo mutations in 4 parent-offspring trios affected by West syndrome. As a result, we found two deleterious de novo mutations in DYNC1H1 and RTP1 in two trios. Expression profile analysis showed that DYNC1H1 and RTP1 are expressed in almost all brain regions and developmental stages...
March 21, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28325471/can-we-identify-who-gets-benefit-or-harm-from-mycophenolate-mofetil-in-systemic-lupus-erythematosus-a-systematic-review
#15
Claudia Mendoza-Pinto, Carmelo Pirone, Daniëlle A van der Windt, Ben Parker, Ian N Bruce
OBJECTIVES: We aimed to summarize the evidence examining factors that predict differential response to mycophenolate mofetil (MMF) in systemic lupus erythematosus (SLE). METHODS: Systematic searches of randomized clinical trials (RCT) to identify predictors of the effects of MMF (moderators), and cohort studies to explore prognostic factors associated with MMF outcomes (response, relapse, or adverse events) were performed. Two reviewers independently assessed the methodological quality of RCTs using the Cochrane Collaboration risk of bias tool and cohort studies using the QUality In Prognosis Studies tool...
February 9, 2017: Seminars in Arthritis and Rheumatism
https://www.readbyqxmd.com/read/28325284/type-i-interferons-impede-short-hairpin-rna-mediated-rnai-via-inhibition-of-dicer-mediated-processing-to-small-interfering-rna
#16
Mitsuhiro Machitani, Fuminori Sakurai, Keisaku Wakabayashi, Kosuke Takayama, Masashi Tachibana, Hiroyuki Mizuguchi
RNAi by short hairpin RNA (shRNA) is a powerful tool not only for studying gene functions in various organisms, including mammals, but also for the treatment of severe disorders. However, shRNA-expressing vectors can induce type I interferon (IFN) expression by activation of innate immune responses, leading to off-target effects and unexpected side effects. Several strategies have been developed to prevent type I IFN induction. On the other hand, it has remained unclear whether type I IFNs have effects on shRNA-mediated RNAi...
March 17, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28325210/breast-cancer-immunology-and-immunotherapy-current-status-and-future-perspectives
#17
L de la Cruz-Merino, M Chiesa, R Caballero, F Rojo, N Palazón, F H Carrasco, V Sánchez-Margalet
Cancer immunology has gained renewed interest in the past few years due to emerging findings on mechanisms involved in tumoral immune evasion. Indisputably, immune edition is currently considered a critical hallmark of cancer. Basic research has revealed new targets which can be modulated in the clinical setting with new compounds and strategies. As recent evidence confirms, breast cancer (BC) is a complex and heterogeneous disease in which host immune responses play a substantial role. T-infiltrating lymphocytes measurement is suggested as a powerful new tool necessary to predict early BC evolution, especially in HER2-positive and triple negative subtypes...
2017: International Review of Cell and Molecular Biology
https://www.readbyqxmd.com/read/28325027/identifying-the-effects-of-visceral-interoception-on-human-brain-connectome-a-multivariate-analysis-of-covariance-of-fmri-data
#18
Behnaz Jarrahi, Dante Mantini
Sources of variations in the neural circuitry of the human brain and interrelationship between intrinsic connectivity networks (ICNs) are still a matter of debate and ongoing research. Here, we applied a multivariate analysis of covariance (MANCOVA) based on high-dimensional independent component analysis (ICA) to identify the effects of interoception and related variables on human brain connectome. Fifteen healthy right-handed subjects (all females, age range 21 - 48 years; mean age = 30.3, SD = 8.7 years) underwent a blood-oxygen-level-dependent (BOLD) functional magnetic resonance imaging (fMRI) that included continuous intravesical saline infusion and drainage...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28325008/feasibility-of-an-ultra-low-power-digital-signal-processor-platform-as-a-basis-for-a-fully-implantable-brain-computer-interface-system
#19
Po T Wang, Keulanna Gandasetiawan, Colin M McCrimmon, Alireza Karimi-Bidhendi, Charles Y Liu, Payam Heydari, Zoran Nenadic, An H Do
A fully implantable brain-computer interface (BCI) can be a practical tool to restore independence to those affected by spinal cord injury. We envision that such a BCI system will invasively acquire brain signals (e.g. electrocorticogram) and translate them into control commands for external prostheses. The feasibility of such a system was tested by implementing its benchtop analogue, centered around a commercial, ultra-low power (ULP) digital signal processor (DSP, TMS320C5517, Texas Instruments). A suite of signal processing and BCI algorithms, including (de)multiplexing, Fast Fourier Transform, power spectral density, principal component analysis, linear discriminant analysis, Bayes rule, and finite state machine was implemented and tested in the DSP...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28324978/influence-of-electrode-configuration-on-the-electric-field-distribution-during-transcutaneous-spinal-direct-current-stimulation-of-the-cervical-spine
#20
Sofia R Fernandes, Ricardo Salvador, Cornelia Wenger, Mamede A de Carvalho, Pedro C Miranda
Transcutaneous spinal direct current stimulation (tsDCS) is a recent technique with promising neuromodulatory effects on spinal neuronal circuitry. The main objective of the present study was to perform a finite element analysis of the electric field distribution in tsDCS in the cervical spine region, with varying electrode configurations and geometry. A computational model of a human trunk was generated with nine tissue meshes. Three electrode configurations were tested: A) rectangular saline-soaked sponge target and return electrodes placed over C3 and T3 spinous processes, respectively; B1) circular saline-soaked sponge target and return electrodes placed over C7 spinous process and right deltoid muscle, respectively; B2) same configuration as B1, considering circular shaped electrodes with sponge and rubber layers and a small circular connector on the top surface...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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