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https://www.readbyqxmd.com/read/29228516/refining-prediction-in-treatment-resistant-depression-results-of-machine-learning-analyses-in-the-trd-iii-sample
#1
Alexander Kautzky, Markus Dold, Lucie Bartova, Marie Spies, Thomas Vanicek, Daniel Souery, Stuart Montgomery, Julien Mendlewicz, Joseph Zohar, Chiara Fabbri, Alessandro Serretti, Rupert Lanzenberger, Siegfried Kasper
OBJECTIVE: The study objective was to generate a prediction model for treatment-resistant depression (TRD) using machine learning featuring a large set of 47 clinical and sociodemographic predictors of treatment outcome. METHOD: 552 Patients diagnosed with major depressive disorder (MDD) according to DSM-IV criteria were enrolled between 2011 and 2016. TRD was defined as failure to reach response to antidepressant treatment, characterized by a Montgomery-Asberg Depression Rating Scale (MADRS) score below 22 after at least 2 antidepressant trials of adequate length and dosage were administered...
December 5, 2017: Journal of Clinical Psychiatry
https://www.readbyqxmd.com/read/29228504/dynamic-borrowing-through-empirical-power-priors-that-control-type-i-error
#2
Stavros Nikolakopoulos, Ingeborg van der Tweel, Kit C B Roes
In order for historical data to be considered for inclusion in the design and analysis of clinical trials, prospective rules are essential. Incorporation of historical data may be of particular interest in the case of small populations where available data is scarce and heterogeneity is not as well understood, and thus conventional methods for evidence synthesis might fall short. The concept of power priors can be particularly useful for borrowing evidence from a single historical study. Power priors employ a parameter γ∈[0,1] that quantifies the heterogeneity between the historical study and the new study...
December 11, 2017: Biometrics
https://www.readbyqxmd.com/read/29228473/population-pharmacokinetics-of-desvenlafaxine-pharmacokinetics-in-korean-versus-us-populations
#3
Alice I Nichols, Sam Liao, Richat Abbas
Desvenlafaxine exposure in Korean and US populations was compared using population pharmacokinetic (PK) analysis. Data from a single- and multiple-dose study of desvenlafaxine (50, 100, and 200 mg) in 30 healthy Korean subjects were added to a population PK model previously developed using sparse PK samples from patients with major depressive disorder, including 140 Korean patients, combined with rich PK data from healthy volunteers. The structural PK model was an open 1-compartment linear disposition model with parallel first-order and 0-order inputs...
December 11, 2017: Clinical Pharmacology in Drug Development
https://www.readbyqxmd.com/read/29228455/prognostic-significance-of-neoadjuvant-rectal-score-in-locally-advanced-rectal-cancer-after-neoadjuvant-chemoradiotherapy-and-construction-of-a-prediction-model
#4
Yanwu Sun, Yiyi Zhang, Xuejing Wu, Huiming Lin, Xingrong Lu, Ying Huang, Zongbin Xu, Shenghui Huang, Xiaojie Wang, Pan Chi
AIM: To evaluate the prognostic significance of neoadjuvant rectal (NAR) score after neoadjuvant chemoradiotherapy (nCRT) for locally advanced rectal cancer (LARC), and to develop a nomogram predicting disease-free survival (DFS). METHOD: A total of 522 LARC patients undergoing nCRT and surgery were included. NAR scores were calculated using the equation [5pN-3(cT-pT) + 12]^2/9.61, and classified as low (<8), intermediate (8-16), and high (>16). Clinicopathological and survival outcomes were compared...
December 11, 2017: Journal of Surgical Oncology
https://www.readbyqxmd.com/read/29228452/establishment-and-analysis-of-the-prediction-model-for-cervical-squamous-cell-carcinoma
#5
Y-H Zhou, W-F Fan, J Deng, H-L Xi
OBJECTIVE: This study aimed to construct a prediction model for cervical squamous cell carcinoma and evaluate its accuracy in diagnosing cervical squamous cell carcinoma. PATIENTS AND METHODS: Fifty patients with initially histopathologically confirmed cervical squamous cell carcinoma and 150 patients with initially histopathologically confirmed cervical intraepithelial neoplasia (CIN) were enrolled. The high-risk human papillomavirus (HR-HPV) infection, human telomerase mRNA component (hTERC) gene and cell-myc (c-myc) gene amplification, and minichromosome maintenance protein 5 (MCM5) protein expression were detected...
November 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/29228413/estimating-vector-borne-viral-infections-in-the-urban-setting-of-the-2020-tokyo-olympics-japan-using-mathematical-modeling
#6
Hiroyuki Furuya
The first domestic outbreak of dengue fever in Japan since 1945 was reported in Tokyo in 2014. Meanwhile, daily mean summer temperatures are expected to continue to rise world-wide. Such conditions are expected to increase the risk of an arbovirus outbreak at the 2020 Tokyo Olympic Games. To address this possibility, the present study compared estimates of the risk of infection by dengue, chikungunya, and Zika viruses in urban areas. To compare the risk of infection by arboviruses transmitted by Ae. albopictus mosquitoes, the reproduction number for each of three arboviruses was estimated under the environmental conditions associated with the 2014 dengue outbreak in Tokyo, and additionally under conditions assuming a daily mean temperature elevation of 2° C...
December 20, 2017: Tokai Journal of Experimental and Clinical Medicine
https://www.readbyqxmd.com/read/29228370/a-nf-%C3%AE%C2%BAb-signature-predicts-low-grade-glioma-prognosis-a-precision-medicine-approach-based-on-patient-derived-stem-cells
#7
Tamara Ius, Yari Ciani, Maria Elisabetta Ruaro, Miriam Isola, Marisa Sorrentino, Michela Bulfoni, Veronica Candotti, Cecilia Correcig, Evgenia Bourkoula, Ivana Manini, Enrico Pegolo, Damiano Mangoni, Stefania Marzinotto, Slobodanka Radovic, Barbara Toffoletto, Federica Caponnetto, Andrea Zanello, Laura Mariuzzi, Carla Di Loreto, Antonio Paolo Beltrami, Silvano Piazza, Miran Skrap, Daniela Cesselli
Background: While recent genome wide association studies have suggested novel low-grade glioma (LGG) stratification models based on a molecular classification, we explored the potential clinical utility of patient-derived cells. Specifically, we assayed glioma-associated stem cells (GASC) that are patient-derived stem cells representative of the glioma microenvironment. Methods: By next generation sequencing, we analyzed the transcriptional profile of GASC derived from patients that underwent anaplastic transformation either within 48 months (GASC-BAD) or ≥7 years (GASC-GOOD) after surgery...
December 7, 2017: Neuro-oncology
https://www.readbyqxmd.com/read/29228297/density-dependence-landscape-and-weather-impacts-on-aquatic-aedes-japonicus-japonicus-diptera-culicidae-abundance-along-an-urban-altitudinal-gradient
#8
Luis Fernando Chaves, Kazuhiko Moji
The Asian Bush Mosquito, Aedes (Finlaya) japonicus japonicus (Theobald) is an important globally invasive mosquito species. In comparison with other major invasive mosquitoes, relatively little is known about Ae. j. japonicus population dynamics in the field. Here, we present results from a 54-biweek long study of Ae. j. japonicus abundance in ovitraps set across the altitudinal gradient of Mt. Konpira, Nagasaki, Japan. Spatially, we found that Ae. j. japonicus fourth instar larvae (Aj4il) were more abundant at the base and top of Mt...
December 8, 2017: Journal of Medical Entomology
https://www.readbyqxmd.com/read/29228285/matrix-factorization-based-data-fusion-for-the-prediction-of-lncrna-disease-associations
#9
Guangyuan Fu, Jun Wang, Carlotta Domeniconi, Guoxian Yu
Motivation: Long non-coding RNAs (lncRNAs) play crucial roles in complex disease diagnosis, prognosis, prevention, and treatment, but only a small portion of lncRNA-disease associations have been experimentally verified. Various computational models have been proposed to identify lncRNA-disease associations by integrating heterogeneous data sources. However, existing models generally ignore the intrinsic structure of data sources or treat them as equally relevant, while they may not be...
December 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228267/the-effects-of-sex-biased-gene-expression-and-x-linkage-on-rates-of-sequence-evolution-in-drosophila
#10
José Luis Campos, Keira Johnston, Brian Charlesworth
A faster rate of adaptive evolution of X-linked genes compared with autosomal genes (the faster-X effect) can be caused by the fixation of recessive or partially recessive advantageous mutations. This effect should be largest for advantageous mutations that affect only male fitness, and least for mutations that affect only female fitness. We tested these predictions in Drosophila melanogaster by using coding and functionally significant non-coding sequences of genes with different levels of sex-biased expression...
December 8, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/29228203/in-vivo-cholinergic-basal-forebrain-atrophy-predicts-cognitive-decline-in-de-novo-parkinson-s-disease
#11
Nicola J Ray, Steven Bradburn, Christopher Murgatroyd, Umar Toseeb, Pablo Mir, George K Kountouriotis, Stefan J Teipel, Michel J Grothe
Cognitive impairments are a prevalent and disabling non-motor complication of Parkinson's disease, but with variable expression and progression. The onset of serious cognitive decline occurs alongside substantial cholinergic denervation, but imprecision of previously available techniques for in vivo measurement of cholinergic degeneration limit their use as predictive cognitive biomarkers. However, recent developments in stereotactic mapping of the cholinergic basal forebrain have been found useful for predicting cognitive decline in prodromal stages of Alzheimer's disease...
December 8, 2017: Brain: a Journal of Neurology
https://www.readbyqxmd.com/read/29228193/deepsf-deep-convolutional-neural-network-for-mapping-protein-sequences-to-folds
#12
Jie Hou, Badri Adhikari, Jianlin Cheng
Motivation: Protein fold recognition is an important problem in structural bioinformatics. Almost all traditional fold recognition methods use sequence (homology) comparison to indirectly predict the fold of a target protein based on the fold of a template protein with known structure, which cannot explain the relationship between sequence and fold. Only a few methods had been developed to classify protein sequences into a small number of folds due to methodological limitations, which are not generally useful in practice...
December 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228185/dncon2-improved-protein-contact-prediction-using-two-level-deep-convolutional-neural-networks
#13
Badri Adhikari, Jie Hou, Jianlin Cheng
Motivation: Significant improvements in the prediction of protein residue-residue contacts are observed in the recent years. These contacts, predicted using a variety of coevolution-based and machine learning methods, are the key contributors to the recent progress in ab initio protein structure prediction, as demonstrated in the recent CASP experiments. Continuing the development of new methods to reliably predict contact maps is essential to further improve ab initio structure prediction...
December 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228182/peith-%C3%AE-perfecting-experiments-with-information-theory-in-python-with-gpu-support
#14
Leander Dony, Jonas Mackerodt, Scott Ward, Sarah Filippi, Michael P H Stumpf, Juliane Liepe
Motivation: Different experiments provide differing levels of information about a biological system. This makes it difficult, a priori, to select one of them beyond mere speculation and/or belief, especially when resources are limited. With the increasing diversity of experimental approaches and general advances in quantitative systems biology, methods that inform us about the information content that a given experiment carries about the question we want to answer, become crucial. Results: PEITH(Θ) is a general purpose, Python framework for experimental design in systems biology...
December 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228136/cd177-neutrophils-suppress-epithelial-cell-tumourigenesis-in-colitis-associated-cancer-and-predict-good-prognosis-in-colorectal-cancer
#15
Guangxi Zhou, Kangsheng Peng, Yang Song, Wenjing Yang, Weigang Shu, Tianming Yu, Lin Yu, Moubin Lin, Qing Wei, Chunqiu Chen, Lu Yin, Yingzi Cong, Zhanju Liu
Neutrophils are found to be infiltrated in tumour tissues of patients with colitis-associated cancer (CAC) and colorectal cancer (CRC), and CD177 is mainly expressed in neutrophils. In our study, expression of CD177 in tumour tissues from patients with CAC or CRC was analysed by qRT-PCR, flow cytometry, and immunohistochemistry. We recruited 378 patients with CRC, determined CD177 expression in tumours, and examined its correlation with clinicopathological features. Moreover, CAC model was induced in wild type (WT) and CD177-/- mice by azoxymethane (AOM)/dextran sodium sulfate (DSS)...
December 8, 2017: Carcinogenesis
https://www.readbyqxmd.com/read/29228122/tennessee-s-in-state-vulnerability-assessment-for-a-rapid-dissemination-of-hiv-or-hcv-infection-event-utilizing-data-about-the-opioid-epidemic
#16
Michael Rickles, Peter F Rebeiro, Lindsey Sizemore, Paul Juarez, Mitchell Mutter, Carolyn Wester, Melissa McPheeters
Background: Knowing which factors contribute to county-level vulnerability to an HIV/Hepatitis C (HCV) outbreak, and which counties are most vulnerable, guide public health and clinical interventions. We therefore examined the impact of locally available indicators related to the opioid epidemic on prior national models of HCV/HIV outbreak vulnerability. Methods: Tennessee's 95 counties were the study sample. Predictors from 2012 and 2013 were used, mirroring prior methodology from the US Centers for Disease Control and Prevention (CDC)...
December 7, 2017: Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America
https://www.readbyqxmd.com/read/29228043/novel-systems-for-the-application-of-isolated-tensile-compressive-and-shearing-stimulation-of-distraction-callus-tissue
#17
Nicholaus Meyers, Julian Schülke, Anita Ignatius, Lutz Claes
BACKGROUND: Distraction osteogenesis is a procedure widely used for the correction of large bone defects. However, a high complication rate persists, likely due to insufficient stability during maturation. Numerical fracture healing models predict bone regeneration under different mechanical conditions allowing fixation stiffness optimization. However, most models apply a linear elastic material law inappropriate for the transient stresses/strains present during limb lengthening or segment transport...
2017: PloS One
https://www.readbyqxmd.com/read/29228035/landscape-effects-on-demersal-fish-revealed-by-field-observations-and-predictive-seabed-modelling
#18
Sophie A M Elliott, Alessandro D Sabatino, Michael R Heath, William R Turrell, David M Bailey
Nature conservation and fisheries management often focus on particular seabed features that are considered vulnerable or important to commercial species. As a result, individual seabed types are protected in isolation, without any understanding of what effect the mixture of seabed types within the landscape has on ecosystem functions. Here we undertook predictive seabed modelling within a coastal marine protected area using observations from underwater stereo-video camera deployments and environmental information (depth, wave fetch, maximum tidal speeds, distance from coast and underlying geology)...
2017: PloS One
https://www.readbyqxmd.com/read/29228030/logistic-regression-analysis-of-conventional-ultrasonography-strain-elastosonography-and-contrast-enhanced-ultrasound-characteristics-for-the-differentiation-of-benign-and-malignant-thyroid-nodules
#19
Tiantian Pang, Leidan Huang, Yingyuan Deng, Tianfu Wang, Siping Chen, Xuehao Gong, Weixiang Liu
The aim of the study is to screen the significant sonographic features by logistic regression analysis and fit a model to diagnose thyroid nodules. A total of 525 pathological thyroid nodules were retrospectively analyzed. All the nodules underwent conventional ultrasonography (US), strain elastosonography (SE), and contrast -enhanced ultrasound (CEUS). Those nodules' 12 suspicious sonographic features were used to assess thyroid nodules. The significant features of diagnosing thyroid nodules were picked out by logistic regression analysis...
2017: PloS One
https://www.readbyqxmd.com/read/29228014/a-model-for-warfare-in-stratified-small-scale-societies-the-effect-of-within-group-inequality
#20
Sagar Pandit, Gauri Pradhan, Carel van Schaik
In order to predict the features of non-raiding human warfare in small-scale, socially stratified societies, we study a coalitionary model of war that assumes that individuals participate voluntarily because their decisions serve to maximize fitness. Individual males join the coalition if war results in a net economic and thus fitness benefit. Within the model, viable offensive war ensues if the attacking coalition of males can overpower the defending coalition. We assume that the two groups will eventually fuse after a victory, with ranks arranged according to the fighting abilities of all males and that the new group will adopt the winning group's skew in fitness payoffs...
2017: PloS One
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