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https://www.readbyqxmd.com/read/28797548/efficient-and-robust-cell-detection-a-structured-regression-approach
#1
Yuanpu Xie, Fuyong Xing, Xiaoshuang Shi, Xiangfei Kong, Hai Su, Lin Yang
Efficient and robust cell detection serves as a critical prerequisite for many subsequent biomedical image analysis methods and computer-aided diagnosis (CAD). It remains a challenging task due to touching cells, inhomogeneous background noise, and large variations in cell sizes and shapes. In addition, the ever-increasing amount of available datasets and the high resolution of whole-slice scanned images pose a further demand for efficient processing algorithms. In this paper, we present a novel structured regression model based on a proposed fully residual convolutional neural network for efficient cell detection...
July 26, 2017: Medical Image Analysis
https://www.readbyqxmd.com/read/28755474/controlling-localization-of-e-coli-populations-using-a-two-part-synthetic-motility-circuit-an-accelerator-and-brake
#2
Ryan McKay, Pricila Hauk, Hsuan-Chen Wu, Alex Eli Pottash, Wu Shang, Jessica Terrell, Gregory F Payne, William E Bentley
Probiotics, whether taken as capsules or consumed in foods, have been regarded as safe for human use by regulatory agencies. Being living cells, they serve as "tunable" factories for the synthesis of a vast array of beneficial molecules. The idea of reprogramming probiotics to act as controllable factories, producing potential therapeutic molecules under user-specified conditions, represents a new and powerful concept in drug synthesis and delivery. Probiotics that serve as drug delivery vehicles pose several challenges, one being targeting (similar to nanoparticle approaches)...
July 29, 2017: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/28746386/tracmit-an-effective-pipeline-for-tracking-and-analyzing-cells-on-micropatterns-through-mitosis
#3
Olivier Burri, Benita Wolf, Arne Seitz, Pierre Gönczy
The use of micropatterns has transformed investigations of dynamic biological processes by enabling the reproducible analysis of live cells using time-lapse fluorescence microscopy. With micropatterns, thousands of individual cells can be efficiently imaged in parallel, rendering the approach well suited for screening projects. Despite being powerful, such screens remain challenging in terms of data handling and analysis. Typically, only a fraction of micropatterns is occupied in a manner suitable to monitor a given phenotypic output...
2017: PloS One
https://www.readbyqxmd.com/read/28711845/the-impact-of-synoptic-circulation-on-air-quality-and-pollution-related-human-health-in-the-yangtze-river-delta-region
#4
Zhiheng Liao, Meng Gao, Jiaren Sun, Shaojia Fan
PM2.5 and O3 pollution are of concern for the Yangtze River Delta (YRD) region due to their adverse impact on human health. In conjunction with a complex distribution of emission sources, the synoptic circulation conditions control the temporal and spatial variability of air pollution levels and hence the pollution-related health burdens. In this study, a long-term synoptic circulation catalogue is developed by applying the automated Lamb weather type method to the ECMWF mean sea level pressure reanalysis for the YRD region during 2013-2016...
July 13, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28710977/assessing-the-toxicity-and-risk-of-salt-impacted-winter-road-runoff-to-the-early-life-stages-of-freshwater-mussels-in-the-canadian-province-of-ontario
#5
R S Prosser, Q Rochfort, R McInnis, K Exall, P L Gillis
In temperate urbanized areas where road salting is used for winter road maintenance, the level of chloride in surface waters has been increasing. While a number of studies have shown that the early-life stages of freshwater mussels are particularly sensitive to salt; few studies have examined the toxicity of salt-impacted winter road runoff to the early-life stages of freshwater mussels to confirm that chloride is the driver of toxicity in this mixture. This study examines the acute toxicity of field-collected winter road runoff to the glochidia of wavy-rayed lampmussels (Lampsilis fasciola) (48 h exposure) and newly released juvenile fatmucket mussels (Lampsilis siliquoidea) (<1 week old; 96 h exposure) under different water hardness...
July 12, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/28693467/predicting-rna-hyper-editing-with-a-novel-tool-when-unambiguous-alignment-is-impossible
#6
Wilson H McKerrow, Yiannis A Savva, Ali Rezaei, Robert A Reenan, Charles E Lawrence
BACKGROUND: Repetitive elements are now known to have relevant cellular functions, including self-complementary sequences that form double stranded (ds) RNA. There are numerous pathways that determine the fate of endogenous dsRNA, and misregulation of endogenous dsRNA is a driver of autoimmune disease, particularly in the brain. Unfortunately, the alignment of high-throughput, short-read sequences to repeat elements poses a dilemma: Such sequences may align equally well to multiple genomic locations...
July 10, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28682063/history-matters-pre-exposure-to-wastewater-enhances-pesticide-toxicity-in-invertebrates
#7
Jochen P Zubrod, Dominic Englert, Simon Lüderwald, Sandra Poganiuch, Ralf Schulz, Mirco Bundschuh
Disturbance regimes determine communities' structure and functioning. Nonetheless, little effort has been undertaken to understand interactions of press and pulse disturbances. In this context, leaf-shredding macroinvertebrates can be chronically exposed to wastewater treatment plant effluents (i.e., press disturbance) before experiencing pesticide exposure following agricultural runoff (i.e., pulse disturbance). It is assumed that wastewater pre-exposure alters animals' sensitivity to pesticides. To test this hypothesis, we exposed model-populations of the shredder Gammarus fossarum to wastewater at three field-relevant dilution levels (i...
July 25, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28617676/interactions-between-low-energy-electrons-and-dna-a-perspective-from-first-principles-simulations
#8
Jorge Kohanoff, Maeve McAllister, Gareth A Tribello, Bin Gu
DNA damage caused by irradiation has been studied for many decades. Such studies allow us to better assess the dangers posed by radiation, and to increase the efficiency of the radiotherapies that are used to combat cancer. A full description of the irradiation process involves multiple size and time scales. It starts with the interaction of radiation-either photons or swift ions-and the biological medium, which causes electronic excitation and ionisation. The two main products of ionising radiation are thus electrons and radicals...
June 15, 2017: Journal of Physics. Condensed Matter: An Institute of Physics Journal
https://www.readbyqxmd.com/read/28590251/a-primer-on-infectious-disease-bacterial-genomics
#9
REVIEW
Tarah Lynch, Aaron Petkau, Natalie Knox, Morag Graham, Gary Van Domselaar
The number of large-scale genomics projects is increasing due to the availability of affordable high-throughput sequencing (HTS) technologies. The use of HTS for bacterial infectious disease research is attractive because one whole-genome sequencing (WGS) run can replace multiple assays for bacterial typing, molecular epidemiology investigations, and more in-depth pathogenomic studies. The computational resources and bioinformatics expertise required to accommodate and analyze the large amounts of data pose new challenges for researchers embarking on genomics projects for the first time...
October 2016: Clinical Microbiology Reviews
https://www.readbyqxmd.com/read/28587488/running-multiple-marathons-is-not-a-risk-factor-for-premature-subclinical-vascular-impairment
#10
Axel Pressler, Christiane Suchy, Tasja Friedrichs, Sophia Dallinger, Viola Grabs, Bernhard Haller, Martin Halle, Johannes Scherr
Background In contrast to the well-accepted benefits of moderate exercise, recent research has suggested potential deleterious effects of repeated marathon running on the cardiovascular system. We thus performed a comprehensive analysis of markers of subclinical vascular damage in a cohort of runners having finished multiple marathon races successfully. Design This was a prospective, observational study. Methods A total of 97 healthy male Munich marathon participants (mean age 44 ± 10 years) underwent detailed training history, cardiopulmonary exercise testing for assessment of peak oxygen uptake, ultrasound for assessment of intima-media-thickness as well as non-invasive assessments of ankle-brachial index, augmentation index, pulse wave velocity and reactive hyperaemia index...
January 1, 2017: European Journal of Preventive Cardiology
https://www.readbyqxmd.com/read/28586353/lack-of-robustness-of-textural-measures-obtained-from-3d-brain-tumor-mris-impose-a-need-for-standardization
#11
David Molina, Julián Pérez-Beteta, Alicia Martínez-González, Juan Martino, Carlos Velasquez, Estanislao Arana, Víctor M Pérez-García
PURPOSE: Textural measures have been widely explored as imaging biomarkers in cancer. However, their robustness under dynamic range and spatial resolution changes in brain 3D magnetic resonance images (MRI) has not been assessed. The aim of this work was to study potential variations of textural measures due to changes in MRI protocols. MATERIALS AND METHODS: Twenty patients harboring glioblastoma with pretreatment 3D T1-weighted MRIs were included in the study...
2017: PloS One
https://www.readbyqxmd.com/read/28583068/lncrna-screen-an-interactive-platform-for-computationally-screening-long-non-coding-rnas-in-large-genomics-datasets
#12
Yixiao Gong, Hsuan-Ting Huang, Yu Liang, Thomas Trimarchi, Iannis Aifantis, Aristotelis Tsirigos
BACKGROUND: Long non-coding RNAs (lncRNAs) have emerged as a class of factors that are important for regulating development and cancer. Computational prediction of lncRNAs from ultra-deep RNA sequencing has been successful in identifying candidate lncRNAs. However, the complexity of handling and integrating different types of genomics data poses significant challenges to experimental laboratories that lack extensive genomics expertise. RESULT: To address this issue, we have developed lncRNA-screen, a comprehensive pipeline for computationally screening putative lncRNA transcripts over large multimodal datasets...
June 5, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28566050/running-and-osteoarthritis-does-recreational-or-competitive-running-increase-the-risk
#13
REVIEW
(no author information available yet)
Exercise, like running, is good for overall health and, specifically, our hearts, lungs, muscles, bones, and brains. However, some people are concerned about the impact of running on longterm joint health. Does running lead to higher rates of arthritis in knees and hips? While many researchers find that running protects bone health, others are concerned that this exercise poses a high risk for age-related changes to hips and knees. A study published in the June 2017 issue of JOSPT suggests that the difference in these outcomes depends on the frequency and intensity of running...
June 2017: Journal of Orthopaedic and Sports Physical Therapy
https://www.readbyqxmd.com/read/28545504/a-case-report-of-zinc-phosphide-poisoning-complicated-by-acute-renal-failure-and-tubulo-interstitial-nephritis
#14
Nilukshana Yogendranathan, H M M T B Herath, Thenuka Sivasundaram, R Constantine, Aruna Kulatunga
BACKGROUND: Run Rat® is a rodenticide widely used against small mammals. It comprises of a minimum of 32% zinc phosphide which is highly toxic in acute exposures to humans. It may be consumed accidentally or intentionally. It enters the body via skin, respiratory and gastrointestinal tracts. Zinc phosphide is hydrolyzed by the gastric acid and is transformed into phosphine gas. Phosphine is a respiratory toxin that inhibits cytochrome C oxidase system resulting in renal failure and liver failure...
May 25, 2017: BMC Pharmacology & Toxicology
https://www.readbyqxmd.com/read/28534316/relationship-between-air-quality-and-outdoor-exercise-behavior-in-china-a-novel-mobile-based-study
#15
Liang Hu, Li Zhu, Yaping Xu, Jiaying Lyu, Kellie Imm, Lin Yang
PURPOSE: Based on data collected from an exercise app, the study aims to provide empirical evidence on the relationship between air quality and patterns of outdoor exercise in China. METHODS: Objective outdoor exercise data spanning 160 days were collected from 153 users of an exercise app, Tulipsport in China. Each exercise mode (running, biking, and walking, respectively) was organized into five air quality categories based on Air Quality Index (AQI): excellent, good, mild pollution, moderate pollution, and serious pollution...
August 2017: International Journal of Behavioral Medicine
https://www.readbyqxmd.com/read/28487432/deciphering-mcr-2-colistin-resistance
#16
Jian Sun, Yongchang Xu, Rongsui Gao, Jingxia Lin, Wenhui Wei, Swaminath Srinivas, Defeng Li, Run-Shi Yang, Xing-Ping Li, Xiao-Ping Liao, Ya-Hong Liu, Youjun Feng
Antibiotic resistance is a prevalent problem in public health worldwide. In general, the carbapenem β-lactam antibiotics are considered a final resort against lethal infections by multidrug-resistant bacteria. Colistin is a cationic polypeptide antibiotic and acts as the last line of defense for treatment of carbapenem-resistant bacteria. Very recently, a new plasmid-borne colistin resistance gene, mcr-2, was revealed soon after the discovery of the paradigm gene mcr-1, which has disseminated globally. However, the molecular mechanisms for MCR-2 colistin resistance are poorly understood...
May 9, 2017: MBio
https://www.readbyqxmd.com/read/28460328/isothermal-assay-targeting-class-1-integrase-gene-for-environmental-surveillance-of-antibiotic-resistance-markers
#17
Robert D Stedtfeld, Tiffany M Stedtfeld, Hassen Waseem, Meridith Fitschen-Brown, Xueping Guo, Benli Chai, Maggie R Williams, Trevor Shook, Amanda Logan, Ally Graham, Jong-Chan Chae, Woo-Jun Sul, Jacob VanHouten, James R Cole, Gerben J Zylstra, James M Tiedje, Brad L Upham, Syed A Hashsham
Antimicrobial resistance genes (ARGs) present in the environment pose a risk to human health due to potential for transfer to human pathogens. Surveillance is an integral part of mitigating environmental dissemination. Quantification of the mobile genetic element class 1 integron-integrase gene (intI1) has been proposed as a surrogate to measuring multiple ARGs. Measurement of such indicator genes can be further simplified by adopting emerging nucleic acids methods such as loop mediated isothermal amplification (LAMP)...
August 1, 2017: Journal of Environmental Management
https://www.readbyqxmd.com/read/28448031/transcriptomic-analysis-of-c-elegans-rna-sequencing-data-through-the-tuxedo-suite-on-the-galaxy-project
#18
Francis R G Amrit, Arjumand Ghazi
Next generation sequencing (NGS) technologies have revolutionized the nature of biological investigation. Of these, RNA Sequencing (RNA-Seq) has emerged as a powerful tool for gene-expression analysis and transcriptome mapping. However, handling RNA-Seq datasets requires sophisticated computational expertise and poses inherent challenges for biology researchers. This bottleneck has been mitigated by the open access Galaxy project that allows users without bioinformatics skills to analyze RNA-Seq data, and the Database for Annotation, Visualization, and Integrated Discovery (DAVID), a Gene Ontology (GO) term analysis suite that helps derive biological meaning from large data sets...
April 8, 2017: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/28417944/variable-admittance-control-based-on-fuzzy-reinforcement-learning-for-minimally-invasive-surgery-manipulator
#19
Zhijiang Du, Wei Wang, Zhiyuan Yan, Wei Dong, Weidong Wang
In order to get natural and intuitive physical interaction in the pose adjustment of the minimally invasive surgery manipulator, a hybrid variable admittance model based on Fuzzy Sarsa(λ)-learning is proposed in this paper. The proposed model provides continuous variable virtual damping to the admittance controller to respond to human intentions, and it effectively enhances the comfort level during the task execution by modifying the generated virtual damping dynamically. A fuzzy partition defined over the state space is used to capture the characteristics of the operator in physical human-robot interaction...
April 12, 2017: Sensors
https://www.readbyqxmd.com/read/28412945/multimorbidity-associated-with-functional-independence-among-community-dwelling-older-people-a-cross-sectional-study-in-southern-china
#20
Xiao-Xiao Wang, Wei-Quan Lin, Xu-Jia Chen, Ying-Yu Lin, Ling-Ling Huang, Sheng-Chao Zhang, Pei-Xi Wang
BACKGROUND: Multimorbidity, the coexistence of two or more chronic diseases, is common in older adults. And it may lead to many adverse health outcomes, such as disability. However, data on multimorbidity and its relationship with functional independence are scarce in Asian countries. Therefore, this study aims to investigate the relationship between multimorbidity and functional status among older people in China. METHODS: Based on a cross-sectional survey, the information regarding 2705 older adults, who were of at least 60 years of age, was collected through interviews and analyzed...
April 17, 2017: Health and Quality of Life Outcomes
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