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https://www.readbyqxmd.com/read/28723971/termination-factor-rho-from-the-control-of-pervasive-transcription-to-cell-fate-determination-in-bacillus-subtilis
#1
Vladimir Bidnenko, Pierre Nicolas, Aleksandra Grylak-Mielnicka, Olivier Delumeau, Sandrine Auger, Anne Aucouturier, Cyprien Guerin, Repoila Francis, Jacek Bardowski, Stéphane Aymerich, Elena Bidnenko
In eukaryotes, RNA species originating from pervasive transcription are regulators of various cellular processes, from the expression of individual genes to the control of cellular development and oncogenesis. In prokaryotes, the function of pervasive transcription and its output on cell physiology is still unknown. Most bacteria possess termination factor Rho, which represses pervasive, mostly antisense, transcription. Here, we investigate the biological significance of Rho-controlled transcription in the Gram-positive model bacterium Bacillus subtilis...
July 19, 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28720581/hit-ndrive-patient-specific-multi-driver-gene-prioritization-for-precision-oncology
#2
Raunak Shrestha, Ermin Hodzic, Thomas Sauerwald, Phuong Dao, Kendric Wang, Jake Yeung, Shawn Anderson, Fabio Vandin, Gholamreza Haffari, Colin C Collins, Cenk Sahinalp
Prioritizing molecular alterations that act as drivers of cancer remains a crucial bottleneck in therapeutic development. Here we introduce HIT'nDRIVE, a computational method that integrates genomic and transcriptomic data to identify a set of patient-specific, sequence-altered genes, with sufficient collective influence over dysregulated transcripts. HIT'nDRIVE aims to solve the "random walk facility location" (RWFL) problem in a gene (or protein) interaction network, which differs from the standard facility location problem by its use of an alternative distance measure: "multi-hitting time", the expected length of the shortest random walk from any one of the set of sequence-altered genes to an expression-altered target gene...
July 18, 2017: Genome Research
https://www.readbyqxmd.com/read/28720508/to-swim-or-not-to-swim-a-population-level-model-of-xenopus-tadpole-decision-making-and-locomotor-behaviour
#3
Roman Borisyuk, Robert Merrison-Hort, Steve R Soffe, Stella Koutsikou, Wen-Chang Li
We present a detailed computational model of interacting neuronal populations that mimic the hatchling Xenopus tadpole nervous system. The model includes four sensory pathways, integrators of sensory information, and a central pattern generator (CPG) network. Sensory pathways of different modalities receive inputs from an "environment"; these inputs are then processed and integrated to select the most appropriate locomotor action. The CPG populations execute the selected action, generating output in motor neuron populations...
July 15, 2017: Bio Systems
https://www.readbyqxmd.com/read/28719616/analytical-network-process-based-optimum-cluster-head-selection-in-wireless-sensor-network
#4
Haleem Farman, Huma Javed, Bilal Jan, Jamil Ahmad, Shaukat Ali, Falak Naz Khalil, Murad Khan
Wireless Sensor Networks (WSNs) are becoming ubiquitous in everyday life due to their applications in weather forecasting, surveillance, implantable sensors for health monitoring and other plethora of applications. WSN is equipped with hundreds and thousands of small sensor nodes. As the size of a sensor node decreases, critical issues such as limited energy, computation time and limited memory become even more highlighted. In such a case, network lifetime mainly depends on efficient use of available resources...
2017: PloS One
https://www.readbyqxmd.com/read/28719175/a-simple-cleated-dna-walker-that-hangs-on-to-surfaces
#5
Cheulhee Jung, Peter B Allen, Andrew D Ellington
We designed and demonstrated a single-legged or unipedal walker that has a "cleat" that allows it to persistently associate with a track and make autonomous decisions about movement. The walker is highly processive over long periods of time, as shown by its movement over a microparticle surface suffused with substrate. The simple design can be readily optimized on the basis of simple energetic considerations. The walker can be used for signal amplification and should prove especially valuable for programming amorphous computations within chemical reaction networks...
July 18, 2017: ACS Nano
https://www.readbyqxmd.com/read/28717214/cumulative-dynamics-of-independent-information-spreading-behaviour-a-physical-perspective
#6
Cangqi Zhou, Qianchuan Zhao, Wenbo Lu
The popularization of information spreading in online social networks facilitates daily communication among people. Although much work has been done to study the effect of interactions among people on spreading, there is less work that considers the pattern of spreading behaviour when people independently make their decisions. By comparing microblogging, an important medium for information spreading, with the disordered spin glass system, we find that there exist interesting corresponding relationships between them...
July 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28716511/an-ensemble-predictive-modeling-framework-for-breast-cancer-classification
#7
Radhakrishnan Nagarajan, Meenakshi Upreti
Molecular changes often precede clinical presentation of diseases and can be useful surrogates with potential to assist in informed clinical decision making. Recent studies have demonstrated the usefulness of modeling approaches such as classification that can predict the clinical outcomes from molecular expression profiles. While useful, a majority of these approaches implicitly use all molecular markers as features in the classification process often resulting in sparse high-dimensional projection of the samples often comparable to that of the sample size...
July 14, 2017: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/28714936/extending-wireless-rechargeable-sensor-network-life-without-full-knowledge
#8
Najeeb W Najeeb, Carrick Detweiler
When extending the life of Wireless Rechargeable Sensor Networks (WRSN), one challenge is charging networks as they grow larger. Overcoming this limitation will render a WRSN more practical and highly adaptable to growth in the real world. Most charging algorithms require a priori full knowledge of sensor nodes' power levels in order to determine the nodes that require charging. In this work, we present a probabilistic algorithm that extends the life of scalable WRSN without a priori power knowledge and without full network exploration...
July 17, 2017: Sensors
https://www.readbyqxmd.com/read/28710943/survival-after-recurrence-of-stage-i-iii-breast-colorectal-or-lung-cancer
#9
Michael J Hassett, Hajime Uno, Angel M Cronin, Nikki M Carroll, Mark C Hornbrook, Paul Fishman, Debra P Ritzwoller
BACKGROUND: The experiences of patients with recurrent cancer are assumed to reflect those of patients with de novo stage IV disease; yet, little is truly known because most registries lack recurrence status. Using two databases with excellent recurrence and death information, we examined determinants of survival duration after recurrence of breast (BC), colorectal (CRC), and lung cancers (LC). METHODS: Recurrence status was abstracted from the medical records of patients who participated in the Cancer Care Outcomes Research and Surveillance study and who received care at two Cancer Research Network sites-the Colorado and Northwest regions of Kaiser Permanente...
July 12, 2017: Cancer Epidemiology
https://www.readbyqxmd.com/read/28710056/health-related-coping-and-social-interaction-in-people-with-multiple-sclerosis-supported-by-a-social-network-pilot-study-with-a-new-methodological-approach
#10
Luigi Lavorgna, Antonio Russo, Manuela De Stefano, Roberta Lanzillo, Sabrina Esposito, Fatemeh Moshtari, Francesco Rullani, Kyrie Piscopo, Daniela Buonanno, Vincenzo Brescia Morra, Antonio Gallo, Gioacchino Tedeschi, Simona Bonavita
BACKGROUND: Social media are a vital link for people with health concerns who find in Web communities a valid and comforting source for information exchange, debate, and knowledge enrichment. This aspect is important for people affected by chronic diseases like multiple sclerosis (MS), who are very well informed about the disease but are vulnerable to hopes of being cured or saved by therapies whose efficacy is not always scientifically proven. To improve health-related coping and social interaction for people with MS, we created an MS social network (SMsocialnetwork...
July 14, 2017: Interactive Journal of Medical Research
https://www.readbyqxmd.com/read/28708958/racial-disparities-in-family-provider-interactions-for-pediatric-asthma-care
#11
Michelle Trivedi, Vicki Fung, Elyse O Kharbanda, Emma K Larkin, Melissa G Butler, Kelly Horan, Tracy A Lieu, Ann Chen Wu
OBJECTIVE: Black and Latino children experience significantly worse asthma morbidity than their white peers for multifactorial reasons. This study investigated differences in family-provider interactions for pediatric asthma, based on race/ethnicity. METHODS: This was a cross-sectional study of parent surveys of asthmatic children within the Population-Based Effectiveness in Asthma and Lung Diseases Network. Our study population comprised 647 parents with survey response data...
July 14, 2017: Journal of Asthma: Official Journal of the Association for the Care of Asthma
https://www.readbyqxmd.com/read/28707569/imaginative-reinforcement-learning-computational-principles-and-neural-mechanisms
#12
Samuel J Gershman, Jimmy Zhou, Cody Kommers
Imagination enables us not only to transcend reality but also to learn about it. In the context of reinforcement learning, an agent can rationally update its value estimates by simulating an internal model of the environment, provided that the model is accurate. In a series of sequential decision-making experiments, we investigated the impact of imaginative simulation on subsequent decisions. We found that imagination can cause people to pursue imagined paths, even when these paths are suboptimal. This bias is systematically related to participants' optimism about how much reward they expect to receive along imagined paths; providing feedback strongly attenuates the effect...
July 14, 2017: Journal of Cognitive Neuroscience
https://www.readbyqxmd.com/read/28707123/visual-properties-and-memorising-scenes-effects-of-image-space-sparseness-and-uniformity
#13
Jiří Lukavský, Filip Děchtěrenko
Previous studies have demonstrated that humans have a remarkable capacity to memorise a large number of scenes. The research on memorability has shown that memory performance can be predicted by the content of an image. We explored how remembering an image is affected by the image properties within the context of the reference set, including the extent to which it is different from its neighbours (image-space sparseness) and if it belongs to the same category as its neighbours (uniformity). We used a reference set of 2,048 scenes (64 categories), evaluated pairwise scene similarity using deep features from a pretrained convolutional neural network (CNN), and calculated the image-space sparseness and uniformity for each image...
July 13, 2017: Attention, Perception & Psychophysics
https://www.readbyqxmd.com/read/28704928/dynamic-hippocampal-and-prefrontal-contributions-to-memory-processes-and-representations-blur-the-boundaries-of-traditional-cognitive-domains
#14
REVIEW
Rachael D Rubin, Hillary Schwarb, Heather D Lucas, Michael R Dulas, Neal J Cohen
The hippocampus has long been known to be a critical component of the memory system involved in the formation and use of long-term declarative memory. However, recent findings have revealed that the reach of hippocampal contributions extends to a variety of domains and tasks that require the flexible use of cognitive and social behavior, including domains traditionally linked to prefrontal cortex (PFC), such as decision-making. In addition, the prefrontal cortex (PFC) has gained traction as a necessary part of the memory system...
July 12, 2017: Brain Sciences
https://www.readbyqxmd.com/read/28703087/drug-disinvestment-frameworks-components-challenges-and-solutions
#15
Mary Alison Maloney, Lisa Schwartz, Daria O'Reilly, Mitchel Levine
OBJECTIVES: Value assessments of marketed drug technologies have been developed through disinvestment frameworks. Components of these frameworks are varied and implementation challenges are prevalent. The objective of this systematic literature review was to describe disinvestment framework process components for drugs and to report on framework components, challenges, and solutions. METHODS: A systematic literature search was conducted using the terms: reassessment, reallocation, reinvestment, disinvestment, delist, decommission or obsolescence in MEDLINE, EMBASE, NLM PubMed, the Cochrane Library, and CINAHL from January 1, 2000, until November 14, 2015...
July 13, 2017: International Journal of Technology Assessment in Health Care
https://www.readbyqxmd.com/read/28699566/entity-recognition-from-clinical-texts-via-recurrent-neural-network
#16
Zengjian Liu, Ming Yang, Xiaolong Wang, Qingcai Chen, Buzhou Tang, Zhe Wang, Hua Xu
BACKGROUND: Entity recognition is one of the most primary steps for text analysis and has long attracted considerable attention from researchers. In the clinical domain, various types of entities, such as clinical entities and protected health information (PHI), widely exist in clinical texts. Recognizing these entities has become a hot topic in clinical natural language processing (NLP), and a large number of traditional machine learning methods, such as support vector machine and conditional random field, have been deployed to recognize entities from clinical texts in the past few years...
July 5, 2017: BMC Medical Informatics and Decision Making
https://www.readbyqxmd.com/read/28698556/location-sensitive-deep-convolutional-neural-networks-for-segmentation-of-white-matter-hyperintensities
#17
Mohsen Ghafoorian, Nico Karssemeijer, Tom Heskes, Inge W M van Uden, Clara I Sanchez, Geert Litjens, Frank-Erik de Leeuw, Bram van Ginneken, Elena Marchiori, Bram Platel
The anatomical location of imaging features is of crucial importance for accurate diagnosis in many medical tasks. Convolutional neural networks (CNN) have had huge successes in computer vision, but they lack the natural ability to incorporate the anatomical location in their decision making process, hindering success in some medical image analysis tasks. In this paper, to integrate the anatomical location information into the network, we propose several deep CNN architectures that consider multi-scale patches or take explicit location features while training...
July 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28697386/alterations-in-functional-brain-networks-associated-with-loss-chasing-in-gambling-disorder-and-cocaine-use-disorder
#18
Patrick D Worhunsky, Marc N Potenza, Robert D Rogers
BACKGROUND: Continued, persistent gambling to recover accumulating losses, or 'loss-chasing', is a behavioral pattern linked particularly closely to gambling disorder (GD) but may reflect impaired decision-making processes relevant to drug addictions like cocaine-use disorder (CUD). However, little is known regarding the neurocognitive mechanisms of this complex, maladaptive behavior, particularly in individuals with addictive disorders. METHODS: Seventy participants (25 GD, 18 CUD, and 27 healthy comparison (HC)) completed a loss-chase task during fMRI...
June 28, 2017: Drug and Alcohol Dependence
https://www.readbyqxmd.com/read/28696840/health-social-workers-sources-of-knowledge-for-decision-making-in-practice
#19
Fiona McDermott, Annabel Henderson, Carol Quayle
This article presents findings from research examining knowledge social workers in a health network in Victoria, Australia identified as informing their decision-making. Data for 13 patients, and in-depth interviews with six social workers who worked with these patients, were studied. A thematic analysis of interviews revealed that participants identified reliance on past experience and contextual/situational information as underpinning their decisions, demonstrating their commitment to person-in-environment perspectives...
July 11, 2017: Social Work in Health Care
https://www.readbyqxmd.com/read/28691994/core-outcome-domains-for-clinical-trials-on-somatic-symptom-disorder-bodily-distress-disorder-and-functional-somatic-syndromes-euronet-soma-recommendations
#20
Winfried Rief, Chris Burton, Lisbeth Frostholm, Peter Henningsen, Maria Kleinstäuber, Willem J Kop, Bernd Löwe, Alexandra Martin, Ulrik Malt, Judith Rosmalen, Andreas Schröder, Meike Shedden-Mora, Anne Toussaint, Christina van der Feltz-Cornelis
OBJECTIVE: The harmonization of core outcome domains in clinical trials facilitates comparison and pooling of data, and simplifies the preparation and review of research projects, and comparison of risks and benefits of treatments. Therefore we provide recommendations for the core outcome domains that should be considered in clinical trials on the efficacy and effectiveness of interventions for somatic symptom disorder, bodily distress disorder, and functional somatic syndromes. METHODS: The European Network on Somatic Symptom Disorders group (EURONET-SOMA) of more than 20 experts in the field met twice in Hamburg to discuss issues of assessment and intervention research in somatic symptom disorder, bodily distress disorder, and functional somatic syndromes...
July 7, 2017: Psychosomatic Medicine
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