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https://www.readbyqxmd.com/read/28330163/probing-an-optimal-class-distribution-for-enhancing-prediction-and-feature-characterization-of-plant-virus-encoded-rna-silencing-suppressors
#1
Abhigyan Nath, Karthikeyan Subbiah
To counter the host RNA silencing defense mechanism, many plant viruses encode RNA silencing suppressor proteins. These groups of proteins share very low sequence and structural similarities among them, which consequently hamper their annotation using sequence similarity-based search methods. Alternatively the machine learning-based methods can become a suitable choice, but the optimal performance through machine learning-based methods is being affected by various factors such as class imbalance, incomplete learning, selection of inappropriate features, etc...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330125/detection-of-genetic-variation-in-sandalwood-using-various-dna-markers
#2
Dimple M Patel, Ranbir S Fougat, Amar A Sakure, Sushil Kumar, Mukesh Kumar, Jigar G Mistry
In the present study, 20 sandalwood (Santalum album L.) genotypes were characterized using RAPD, ISSR and SSR markers. Twenty-five RAPD and twenty-one ISSR primers that generated clear and reproducible banding patterns amplified 225 and 208 bands, respectively, among 20 sandalwood genotypes. Out of 225, 181 (83.13 %) RAPD bands were polymorphic while out of 208, 156 (75.77 %) ISSR bands were polymorphic. The average polymorphism information content (PIC) for RAPD and ISSR was 0.84 and 0.86, respectively...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28329805/cognitive-function-in-low-income-and-low-literacy-settings-validation-of-the-tablet-based-oxford-cognitive-screen-in-the-health-and-aging-in-africa-a-longitudinal-study-of-an-indepth-community-in-south-africa-haalsi
#3
Glyn W Humphreys, Mihaela D Duta, Livia Montana, Nele Demeyere, Cathal McCrory, Julia Rohr, Kathleen Kahn, Stephen Tollman, Lisa Berkman
Objectives: 1. Assess validity of the Oxford Cognitive Screen (OCS-Plus), a domain-specific cognitive assessment designed for low-literacy settings, especially in low- and middle-income countries (LMIC); 2. Advance theoretical contributions in cognitive neuroscience in domain-specific cognitive function and cognitive reserve, especially related to dementia. Method: In a cross-sectional study of a sample of 1,402 men and women aged 40-79 in the Health and Aging in Africa: A Longitudinal Study of an INDEPTH Community in South Africa (HAALSI), we administered OCS-Plus along with health and sociodemographic assessments...
October 21, 2016: Journals of Gerontology. Series B, Psychological Sciences and Social Sciences
https://www.readbyqxmd.com/read/28329662/the-preneoplastic-genome-transcriptomic-drivers-of-squamous-cell-carcinoma-development
#4
Kenneth Y Tsai
Cutaneous squamous cell carcinoma (cuSCC) comprises 15-20% of all skin cancers, accounting for over 700,000 cases in the U.S. annually. Most cuSCC arise in association with a distinct precancerous lesion, the actinic keratosis (AK). In order to identify potential targets for molecularly targeted chemoprevention, we performed integrated cross-species genomic analysis of cuSCC development through the preneoplastic AK stage using matched human samples and a solar UV- driven Hairless mouse model. We performed RNA-seq and microRNA-seq on samples from both patients undergoing Mohs surgery and the mouse model...
September 15, 2016: Dermatology Online Journal
https://www.readbyqxmd.com/read/28329420/towards-a-symptom-cluster-model-in-chronic-kidney-disease-a-structural-equation-approach
#5
Hayfa Almutary, Clint Douglas, Ann Bonner
AIMS: To test a symptom cluster model in chronic kidney disease patients based on the Theory of Unpleasant Symptoms, accounting for the relationships between influencing factors, symptom experience and consequences for quality of life. BACKGROUND: The evaluation of symptom clusters is a new field of scientific inquiry directed toward more focused symptom management. Yet, little is known about relationships between symptom clusters, predictors and the synergistic effect of multiple symptoms on outcomes...
March 22, 2017: Journal of Advanced Nursing
https://www.readbyqxmd.com/read/28328968/c-reactive-protein-and-n-terminal-prohormone-brain-natriuretic-peptide-as-biomarkers-in-acute-exacerbations-of-copd-leading-to-hospitalizations
#6
Yu-Wei Roy Chen, Virginia Chen, Zsuzsanna Hollander, Jonathon A Leipsic, Cameron J Hague, Mari L DeMarco, J Mark FitzGerald, Bruce M McManus, Raymond T Ng, Don D Sin
There are currently no accepted and validated blood tests available for diagnosing acute exacerbations of chronic obstructive pulmonary disease (AECOPD). In this study, we sought to determine the discriminatory power of blood C-reactive protein (CRP) and N-terminal prohormone brain natriuretic peptide (NT-proBNP) in the diagnosis of AECOPD requiring hospitalizations. The study cohort consisted of 468 patients recruited in the COPD Rapid Transition Program who were hospitalized with a primary diagnosis of AECOPD, and 110 stable COPD patients who served as controls...
2017: PloS One
https://www.readbyqxmd.com/read/28328653/somatosensory-functions-in-survivors-of-critical-illness
#7
Philipp Baumbach, Theresa Götz, Albrecht Günther, Thomas Weiss, Winfried Meissner
OBJECTIVES: There is growing evidence for increased levels of pain and reduced health-related quality of life in survivors of critical illness. Recent studies showed marked small nerve fiber pathology in critically ill patients, which may contribute to chronic pain states and reduced physical recovery after ICU discharge. Primary objective of this study was the comparison of somatosensory functions between survivors of critical illness 6 months after ICU discharge and controls. In post hoc analyses, we aimed to identify associations between small fiber deficits, pain, health-related quality of life, and clinical data...
March 21, 2017: Critical Care Medicine
https://www.readbyqxmd.com/read/28328501/monte-carlo-simulations-of-diffusion-weighted-mri-in-myocardium-validation-and-sensitivity-analysis
#8
Joanne Bates, Darryl McClymont, Irvin Teh, Peter Kohl, Jurgen Schneider, Vicente Grau
A model of cardiac microstructure and diffusion MRI is presented, and compared with experimental data from ex vivo rat hearts. The model includes a simplified representation of individual cells, with physiologically correct cell size and orientation, as well as intra- to extracellular volume ratio. Diffusion MRI is simulated using a Monte Carlo model and realistic MRI sequences. The results show good correspondence between the simulated and experimental MRI signals. Similar patterns are observed in the eigenvalues of the diffusion tensor, the mean diffusivity (MD) and the fractional anisotropy (FA)...
March 10, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28328310/developing-human-radiation-biodosimetry-models-testing-cross-species-conversion-approaches-using-an-ex-vivo-model-system
#9
Jin G Park, Sunirmal Paul, Natalia Briones, Jia Zeng, Kristin Gillis, Garrick Wallstrom, Joshua LaBaer, Sally A Amundson
In the event of a large-scale radiation exposure, accurate and quick assessment of radiation dose received would be critical for triage and medical treatment of large numbers of potentially exposed individuals. Current methods of biodosimetry, such as the dicentric chromosome assay, are time consuming and require sophisticated equipment and highly trained personnel. Therefore, scalable biodosimetry approaches, including gene expression profiles in peripheral blood cells, are being investigated. Due to the limited availability of appropriate human samples, biodosimetry development has relied heavily on mouse models, which are not directly applicable to human response...
March 22, 2017: Radiation Research
https://www.readbyqxmd.com/read/28327989/using-and-understanding-cross-validation-strategies-perspectives-on-saeb-et%C3%A2-al
#10
Max A Little, Gael Varoquaux, Sohrab Saeb, Luca Lonini, Arun Jayaraman, David C Mohr, Konrad P Kording
This three-part review takes a detailed look at the complexities of cross validation, fostered by the peer review of Saeb et al.'s paper entitled The need to approximate the use-case in clinical machine learning. It contains perspectives by reviewers and by the original authors that touch upon cross-validation: the suitability of different strategies and their interpretation.
March 17, 2017: GigaScience
https://www.readbyqxmd.com/read/28327987/pssmhcpan-a-novel-pssm-based-software-for-predicting-class-i-peptide-hla-binding-affinity
#11
Geng Liu, Dongli Li, Zhang Li, Si Qiu, Wenhui Li, Cheng-Chi Chao, Naibo Yang, Handong Li, Zhen Cheng, Xin Song, Le Cheng, Xiuqing Zhang, Jian Wang, Huanming Yang, Kun Ma, Yong Hou, Bo Li
Background: Predicting peptides binding affinity with human leukocyte antigen (HLA) is a crucial step in developing powerful antitumor vaccine for cancer immunotherapy. Currently available methods work quite well in predicting peptide binding affinity with HLA alleles such as HLA-A*0201, HLA-A*0101, and HLA-B*0702 in terms of sensitivity and specificity. However, quite a few types of HLA alleles that are present in majority of human populations including HLA-A*0202, HLA-A*0203, HLA-A*6802, HLA-B*5101, HLA-B*5301, HLA-B*5401 and HLA-B*5701 still cannot be predicted with satisfactory accuracy using currently available methods...
March 15, 2017: GigaScience
https://www.readbyqxmd.com/read/28327985/the-need-to-approximate-the-use-case-in-clinical-machine-learning
#12
Sohrab Saeb, Luca Lonini, Arun Jayaraman, David C Mohr, Konrad P Kording
Background: The availability of smartphone and wearable sensor technology is leading to a rapid accumulation of human subject data, and machine learning is emerging as a technique to map that data into clinical predictions. As machine learning algorithms are increasingly used to support clinical decision making, it is vital to reliably quantify their prediction accuracy. Cross-validation is the standard approach where the accuracy of such algorithms is evaluated on data the algorithm has not seen during training...
March 15, 2017: GigaScience
https://www.readbyqxmd.com/read/28327345/immunoassays-for-riboflavin-and-flavin-mononucleotide-using-antibodies-specific-to-d-ribitol-and-d-ribitol-5-phosphate
#13
G Ravi, Yeldur P Venkatesh
Riboflavin (vitamin B2), a water-soluble vitamin, plays a key role in maintaining human health. Though, numerous methods have been reported for the determination of total riboflavin (TRF) content in foods and biological samples, very few methods are reported for quantifying riboflavin and its coenzymes [flavin mononucleotide (FMN); flavin adenine dinucleotide (FAD)] individually. Recently, we have demonstrated that antibodies specific to d-ribitol and d-ribitol-5-phosphate also recognize riboflavin and FMN, respectively, and not vice-versa...
March 18, 2017: Journal of Immunological Methods
https://www.readbyqxmd.com/read/28327146/association-between-obstructive-sleep-apnea-severity-and-endothelial-dysfunction-in-patients-with-type-2-diabetes
#14
Vanessa Bironneau, François Goupil, Pierre Henri Ducluzeau, Marc Le Vaillant, Pierre Abraham, Samir Henni, Séverine Dubois, Audrey Paris, Pascaline Priou, Nicole Meslier, Claire Sanguin, Wojciech Trzépizur, Ramaroson Andriantsitohaina, Maria Carmen Martinez, Frédéric Gagnadoux
BACKGROUND: Obstructive sleep apnea (OSA) and type 2 diabetes (T2D) are associated with endothelial dysfunction a main predictor of late cardiovascular (CV) events. Despite the high prevalence of OSA in patients with T2D, the impact of OSA severity on endothelial function has not been clearly elucidated. The aim of this cross-sectional study was to determine whether increasing OSA severity is associated with poorer endothelial function in patients with T2D. METHODS: 140 patients with T2D and no overt CV disease underwent polysomnography, peripheral arterial tonometry, clinic blood pressure (BP) measurement, biological assessment for CV risk factors, daytime sleepiness and health related quality of life (HRQL) questionnaires...
March 21, 2017: Cardiovascular Diabetology
https://www.readbyqxmd.com/read/28327124/exploring-the-influence-of-cultural-orientations-on-assessment-of-communication-behaviours-during-patient-practitioner-interactions
#15
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/28327098/sleep-quality-internet-addiction-and-depressive-symptoms-among-undergraduate-students-in-nepal
#16
Parash Mani Bhandari, Dipika Neupane, Shristi Rijal, Kiran Thapa, Shiva Raj Mishra, Amod Kumar Poudyal
BACKGROUND: Evidence on the burden of depression, internet addiction and poor sleep quality in undergraduate students from Nepal is virtually non-existent. While the interaction between sleep quality, internet addiction and depressive symptoms is frequently assessed in studies, it is not well explored if sleep quality or internet addiction statistically mediates the association between the other two variables. METHODS: We enrolled 984 students from 27 undergraduate campuses of Chitwan and Kathmandu, Nepal...
March 21, 2017: BMC Psychiatry
https://www.readbyqxmd.com/read/28326241/modeling-of-the-growth-of-gaas-algaas-core-shell-nanowires
#17
Qian Zhang, Peter W Voorhees, Stephen H Davis
Heterostructured GaAs-AlGaAs core-shell nanowires with have attracted much attention because of their significant advantages and great potential for creating high performance nanophotonics and nanoelectronics. The spontaneous formation of Al-rich stripes along certain crystallographic directions and quantum dots near the apexes of the shell are observed in AlGaAs shells. Controlling the formation of these core-shell heterostructures remains challenging. A two-dimensional model valid on the wire cross section, that accounts for capillarity in the faceted surface limit and deposition has been developed for the evolution of the shell morphology and concentration in Al x Ga1-x As alloys...
2017: Beilstein Journal of Nanotechnology
https://www.readbyqxmd.com/read/28325437/a-new-survival-status-prediction-system-for-severe-trauma-patients-based-on-a-multiple-classifier-system
#18
José Sanz, Daniel Paternain, Mikel Galar, Javier Fernandez, Diego Reyero, Tomás Belzunegui
BACKGROUND AND OBJECTIVE: Severe trauma patients are those who have several injuries implying a death risk. Prediction systems consider the severity of these injuries to predict whether the patients are likely to survive or not. These systems allow one to objectively compare the quality of the emergency services of trauma centres across different hospitals. However, even the most accurate existing prediction systems are based on the usage of a single model. The aim of this paper is to combine several models to make the prediction, since this methodology usually improves the performance of single models...
April 2017: Computer Methods and Programs in Biomedicine
https://www.readbyqxmd.com/read/28325170/rapid-discrimination-between-buffalo-and-cow-milk-and-detection-of-adulteration-of-buffalo-milk-with-cow-milk-using-synchronous-fluorescence-spectroscopy-in-combination-with-multivariate-methods
#19
Serap Durakli Velioglu, Elif Ercioglu, Ismail Hakki Boyaci
This research paper describes the potential of synchronous fluorescence (SF) spectroscopy for authentication of buffalo milk, a favourable raw material in the production of some premium dairy products. Buffalo milk is subjected to fraudulent activities like many other high priced foodstuffs. The current methods widely used for the detection of adulteration of buffalo milk have various disadvantages making them unattractive for routine analysis. Thus, the aim of the present study was to assess the potential of SF spectroscopy in combination with multivariate methods for rapid discrimination between buffalo and cow milk and detection of the adulteration of buffalo milk with cow milk...
March 22, 2017: Journal of Dairy Research
https://www.readbyqxmd.com/read/28325017/diffuse-reflectance-spectroscopy-can-differentiate-high-grade-and-low-grade-prostatic-carcinoma
#20
Priya N Werahera, Edward A Jasion, E David Crawford, M Scott Lucia, Adrie van Bokhoven, Holly T Sullivan, Fernando J Kim, Paul D Maroni, J David Port, John W Daily, Francisco G La Rosa
Prostate tumors are graded by the revised Gleason Score (GS) which is the sum of the two predominant Gleason grades present ranging from 6-10. GS 6 cancer exclusively with Gleason grade 3 is designated as low grade (LG) and correlates with better clinical prognosis for patients. GS >7 cancer with at least one of the Gleason grades 4 and 5 is designated as HG indicate worse prognosis for patients. Current transrectal ultrasound guided prostate biopsies often fail to correctly diagnose HG prostate cancer due to sampling errors...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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