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https://www.readbyqxmd.com/read/28444127/hla-class-i-binding-prediction-via-convolutional-neural-networks
#1
Yeeleng S Vang, Xiaohui Xie
Motivation: Many biological processes are governed by protein-ligand interactions. One such example is the recognition of self and nonself cells by the immune system. This immune response process is regulated by the major histocompatibility complex (MHC) protein which is encoded by the human leukocyte antigen (HLA) complex. Understanding the binding potential between MHC and peptides can lead to the design of more potent, peptide-based vaccines and immunotherapies for infectious autoimmune diseases...
April 21, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28422695/on-the-impact-of-regularization-variation-on-localized-multiple-kernel-learning
#2
Yina Han, Kunde Yang, Yixin Yang, Yuanliang Ma
This brief analyzes the effects of regularization variations in the localized kernel weights on the hypothesis generated by localized multiple kernel learning (LMKL) algorithms. Recent research on LMKL includes imposing different regularizations on the localized kernel weights and has led to varying formulations and solution strategies. Following the stability analysis theory as presented by Bousquet and Elisseeff, we give stability bounds based on the norm of the variation of localized kernel weights for three LMKL methods cast in the support vector machine classification framework, including vector ℓp-norm LMKL, matrix-regularized (r,p)-norm LMKL, and samplewise ℓp-norm LMKL...
April 12, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28403334/patient-safety-incidents-and-nursing-workload
#3
Katya Cuadros Carlesi, Kátia Grillo Padilha, Maria Cecília Toffoletto, Carlos Henriquez-Roldán, Monica Andrea Canales Juan
Objective: to identify the relationship between the workload of the nursing team and the occurrence of patient safety incidents linked to nursing care in a public hospital in Chile. Method: quantitative, analytical, cross-sectional research through review of medical records. The estimation of workload in Intensive Care Units (ICUs) was performed using the Therapeutic Interventions Scoring System (TISS-28) and for the other services, we used the nurse/patient and nursing assistant/patient ratios...
April 6, 2017: Revista Latino-americana de Enfermagem
https://www.readbyqxmd.com/read/28380163/aging-as-a-predictor-of-nursing-workload-in-intensive-care-unit-results-from-a-brazilian-sample
#4
Renata Eloah de Lucena Ferretti-Rebustini, Lilia de Souza Nogueira, Rita de Cassia Gengo E Silva, Vanessa de Brito Poveda, Selma Pinheiro Machado, Elaine Machado de Oliveira, Rafaela Andolhe, Katia Grillo Padilha
OBJECTIVE: Verify if aging is an independent predictor of NW in ICU, according to age groups, and its predictive value as a determinant of NW in ICU. METHODS: Study was conducted from 2012 to 2016. A convenience sample composed by patients (age ≥ 18) admitted to nine ICU belonging to a Brazilian hospital, was analyzed. Age was assumed as an independent variable and NW (measured by the Nursing Activities Score - NAS) as dependent. Linear regression model and ROC curve were used for the analysis...
April 3, 2017: Revista da Escola de Enfermagem da U S P
https://www.readbyqxmd.com/read/28334276/motifmap-rna-a-genome-wide-map-of-rbp-binding-sites
#5
Yu Liu, Sha Sun, Timothy Bredy, Marcelo Wood, Robert C Spitale, Pierre Baldi
Motivation: RNA plays a critical role in gene expression and its regulation. RNA binding proteins (RBPs), in turn, are important regulators of RNA. Thanks to the availability of large scale data for RBP binding motifs and in vivo binding sites results in the form of eCLIP experiments, it is now possible to computationally predict RBP binding sites across the whole genome. Results: We describe MotifMap-RNA, an extension of MotifMap which predicts binding sites for RBP motifs across human and mouse genomes and allows large scale querying of predicted binding sites...
February 22, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28292305/possible-misdiagnosis-of-hiv-associated-lymphoma-as-tuberculosis-among-patients-attending-uganda-cancer-institute
#6
Paul Buyego, Lydia Nakiyingi, Henry Ddungu, Stephen Walimbwa, Damalie Nalwanga, Steven J Reynolds, Rosalind Parkes-Ratanshi
BACKGROUND: Early diagnosis of HIV associated lymphoma is challenging because the definitive diagnostic procedure of biopsy, requires skills and equipment that are not readily available. As a consequence, diagnosis may be delayed increasing the risk of mortality. We set out to determine the frequency and risk factors associated with the misdiagnosis of HIV associated lymphoma as tuberculosis (TB) among patients attending the Uganda Cancer Institute (UCI). METHODS: A retrospective cohort study design was used among HIV patients with associated lymphoma patients attending the UCI, Kampala, Uganda between February and March 2015...
March 14, 2017: AIDS Research and Therapy
https://www.readbyqxmd.com/read/28292263/cure-smote-algorithm-and-hybrid-algorithm-for-feature-selection-and-parameter-optimization-based-on-random-forests
#7
Li Ma, Suohai Fan
BACKGROUND: The random forests algorithm is a type of classifier with prominent universality, a wide application range, and robustness for avoiding overfitting. But there are still some drawbacks to random forests. Therefore, to improve the performance of random forests, this paper seeks to improve imbalanced data processing, feature selection and parameter optimization. RESULTS: We propose the CURE-SMOTE algorithm for the imbalanced data classification problem...
March 14, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28290730/qualitative-video-analysis-of-track-cycling-team-pursuit-in-world-class-athletes
#8
Samuel Sigrist, Thomas Maier, Raphael Faiss
PURPOSE: Track cycling team pursuit (TP) is a highly technical effort involving 4 athletes completing 4 km from a standing start often in less than 240 s. Transitions between athletes leading the team are obviously of utmost importance. The aim of this study is to perform qualitative video analyses of transitions of world-class athletes in team pursuit competitions. METHODS: Videos captured at 100 Hz were recorded for 77 races (including 96 different athletes) in 5 international track cycling competitions (e...
March 14, 2017: International Journal of Sports Physiology and Performance
https://www.readbyqxmd.com/read/28226040/assessing-the-adequacy-of-workload-measurement-tools-using-a-quality-based-methodology
#9
Maria Fuensanta Hellín Gil, Maria José López Montesinos, Ana Myriam Seva Llor, Maria Pilar Ferrer Bas, Maria Loreto Maciá Soler
Objective: determine which tool (NEMS and NAS) is most suitable for use in intensive care units using a quality-based methodology. Method: after identifying the opportunity for improvement "Inadequacy of the NEMS for determining nursing workload in the intensive care unit (ICU)", we assessed the NEMS and the NAS, as a proposed improvement to the NEMS, using quality improvement cycles methodology based on the following criteria: measurement of daily nursing workload on a daily and shift basis; the tool encompasses all nursing activities undertaken in the ICU; and workload assessed per patient and unit...
January 2017: Revista Brasileira de Enfermagem
https://www.readbyqxmd.com/read/28185440/influence-of-gender-on-visual-shade-matching-in-dentistry
#10
Oscar E Pecho, Razvan Ghinea, Maria M Perez, Alvaro Della Bona
OBJECTIVE: Accuracy on visual shade matching (VSM) is one of the most difficult procedures in esthetic dentistry. Some variables can influence on this process and gender is one of the most controversial. This observational study evaluated the influence of gender on accuracy of VSM. MATERIALS AND METHODS: One-hundred observers (65 females and 35 males) shade matched four human upper central incisors (UCI) to shade tabs from Vita Classical (VC) shade guide. In addition, the spectral reflectance values from the four UCI and from the 16 VC shade tabs were measured using a spectroradiometer (SP)...
April 2017: Journal of Esthetic and Restorative Dentistry
https://www.readbyqxmd.com/read/28179292/effect-of-androgen-on-normal-biodistribution-of-18-f-2-fluoro-5-methyl-1-beta-d-arabinofuranosyluracil-18f-fmau-in-athymic-non-tumor-bearing-male-mice
#11
Hossein Jadvar, Ryan Park, Li-Peng Yap, Kai Chen, Lindsey Hughes, Peter Conti
AIM: We assessed the association between the presence and absence of androgen on the normal biodistribution of the positron emission tomography (PET) cellular proliferation imaging biomarker, [(18)F]-2'-Fluoro-5-methyl-1-beta-D-arabinofuranosyluracil ((18)F-FMAU), in mice. MATERIALS AND METHODS: Non-castrated (n=4) and castrated (n=4) athymic non-tumor-bearing male mice served as models for presence and absence, respectively, of androgen. MicroPET-CT scans were performed 1 h following tail vein administration of 200 uCi of (18)F-FMAU...
February 2017: Anticancer Research
https://www.readbyqxmd.com/read/28127385/a-hybrid-classification-system-for-heart-disease-diagnosis-based-on-the-rfrs-method
#12
Xiao Liu, Xiaoli Wang, Qiang Su, Mo Zhang, Yanhong Zhu, Qiugen Wang, Qian Wang
Heart disease is one of the most common diseases in the world. The objective of this study is to aid the diagnosis of heart disease using a hybrid classification system based on the ReliefF and Rough Set (RFRS) method. The proposed system contains two subsystems: the RFRS feature selection system and a classification system with an ensemble classifier. The first system includes three stages: (i) data discretization, (ii) feature extraction using the ReliefF algorithm, and (iii) feature reduction using the heuristic Rough Set reduction algorithm that we developed...
2017: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/28113918/batch-mode-active-learning-for-regression-with-expected-model-change
#13
Wenbin Cai, Muhan Zhang, Ya Zhang
While active learning (AL) has been widely studied for classification problems, limited efforts have been done on AL for regression. In this paper, we introduce a new AL framework for regression, expected model change maximization (EMCM), which aims at choosing the unlabeled data instances that result in the maximum change of the current model once labeled. The model change is quantified as the difference between the current model parameters and the updated parameters after the inclusion of the newly selected examples...
April 20, 2016: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28113534/partial-label-learning-via-gaussian-processes
#14
Yu Zhou, Jianjun He, Hong Gu
Partial label learning (PL) is a new weakly supervised machine learning framework that addresses the problems where each training sample is associated with a candidate set of its actual label. Since precisely-labeled data are usually expensive and hard to obtain in practice, PL can be widely used in many real-world tasks. However, as the ambiguity in training data inevitably makes such learning framework difficult to address, only a few algorithms are available so far. In this paper, a new probabilistic kernel algorithm is proposed by employing the Gaussian process model...
October 4, 2016: IEEE Transactions on Cybernetics
https://www.readbyqxmd.com/read/28113451/active-clustering-with-model-based-uncertainty-reduction
#15
Caiming Xiong, David M Johnson, Jason J Corso
Semi-supervised clustering seeks to augment traditional clustering methods by incorporating side information provided via human expertise in order to increase the semantic meaningfulness of the resulting clusters. However, most current methods are passive in the sense that the side information is provided beforehand and selected randomly. This may require a large number of constraints, some of which could be redundant, unnecessary, or even detrimental to the clustering results. Thus in order to scale such semi-supervised algorithms to larger problems it is desirable to pursue an active clustering method- i...
March 9, 2016: IEEE Transactions on Pattern Analysis and Machine Intelligence
https://www.readbyqxmd.com/read/28110724/avnm-a-voting-based-novel-mathematical-rule-for-image-classification
#16
Ankit Vidyarthi, Namita Mittal
BACKGROUND AND OBJECTIVES: In machine learning, the accuracy of the system depends upon classification result. Classification accuracy plays an imperative role in various domains. Non-parametric classifier like K-Nearest Neighbor (KNN) is the most widely used classifier for pattern analysis. Besides its easiness, simplicity and effectiveness characteristics, the main problem associated with KNN classifier is the selection of a number of nearest neighbors i.e. "k" for computation. At present, it is hard to find the optimal value of "k" using any statistical algorithm, which gives perfect accuracy in terms of low misclassification error rate...
December 2016: Computer Methods and Programs in Biomedicine
https://www.readbyqxmd.com/read/28077889/differential-diagnosis-of-erythmato-squamous-diseases-using-classification-and-regression-tree
#17
Keivan Maghooli, Mostafa Langarizadeh, Leila Shahmoradi, Mahdi Habibi-Koolaee, Mohamad Jebraeily, Hamid Bouraghi
INTRODUCTION: Differential diagnosis of Erythmato-Squamous Diseases (ESD) is a major challenge in the field of dermatology. The ESD diseases are placed into six different classes. Data mining is the process for detection of hidden patterns. In the case of ESD, data mining help us to predict the diseases. Different algorithms were developed for this purpose. OBJECTIVE: we aimed to use the Classification and Regression Tree (CART) to predict differential diagnosis of ESD...
October 2016: Acta Informatica Medica: AIM
https://www.readbyqxmd.com/read/28068344/an-empirical-analysis-of-rough-set-categorical-clustering-techniques
#18
Jamal Uddin, Rozaida Ghazali, Mustafa Mat Deris
Clustering a set of objects into homogeneous groups is a fundamental operation in data mining. Recently, many attentions have been put on categorical data clustering, where data objects are made up of non-numerical attributes. For categorical data clustering the rough set based approaches such as Maximum Dependency Attribute (MDA) and Maximum Significance Attribute (MSA) has outperformed their predecessor approaches like Bi-Clustering (BC), Total Roughness (TR) and Min-Min Roughness(MMR). This paper presents the limitations and issues of MDA and MSA techniques on special type of data sets where both techniques fails to select or faces difficulty in selecting their best clustering attribute...
2017: PloS One
https://www.readbyqxmd.com/read/28032526/it-s-not-just-about-speed-reviewing-the-recumbent-bicycle-once-more
#19
Bernhard Wieser
Why did the recumbent bicycle never become a dominant design, despite the fact that it was faster than the safety bicycle on the racetrack? Hassaan Ahmed et al. argue in their recently published paper that the main reason for the marginalization of the recumbent bicycle was semiotic power deployed by the Union Cycliste Internationale (UCI). Here, I demonstrate that the authors drew their conclusions from an incomplete application of the Social Construction of Technology (SCOT) framework. Understanding the diffusion of alternative bicycle designs requires considering more than speed, and more than the UCI as a powerful actor...
December 1, 2016: Social Studies of Science
https://www.readbyqxmd.com/read/27959898/diastolic-left-ventricular-function-in-relation-to-urinary-and-serum-collagen-biomarkers-in-a-general-population
#20
Zhen-Yu Zhang, Susana Ravassa, Wen-Yi Yang, Thibault Petit, Martin Pejchinovski, Petra Zürbig, Begoña López, Fang-Fei Wei, Claudia Pontillo, Lutgarde Thijs, Lotte Jacobs, Arantxa González, Thomas Koeck, Christian Delles, Jens-Uwe Voigt, Peter Verhamme, Tatiana Kuznetsova, Javier Díez, Harald Mischak, Jan A Staessen
Current knowledge on the pathogenesis of diastolic heart failure predominantly rests on case-control studies involving symptomatic patients with preserved ejection fraction and relying on invasive diagnostic procedures including endomyocardial biopsy. Our objective was to gain insight in serum and urinary biomarkers reflecting collagen turnover and associated with asymptomatic diastolic LV dysfunction. We randomly recruited 782 Flemish (51.3% women; 50.5 years). We assessed diastolic LV function from the early and late diastolic peak velocities of the transmitral blood flow and of the mitral annulus...
2016: PloS One
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