keyword
MENU ▼
Read by QxMD icon Read
search

Network function prediction

keyword
https://www.readbyqxmd.com/read/28531764/disrupted-resting-brain-graph-measures-in-individuals-at-high-risk-for-alcoholism
#1
Bharath Holla, Rajanikant Panda, Ganesan Venkatasubramanian, Bharat Biswal, Rose Dawn Bharath, Vivek Benegal
Familial susceptibility to alcoholism is likely to be linked to the externalizing diathesis seen in high-risk offspring from high-density alcohol use disorder (AUD) families. The present study aimed at comparing resting brain functional connectivity and their association with externalizing symptoms and alcoholism familial density in 40 substance-naive high-risk (HR) male offspring from high-density AUD families and 30 matched healthy low-risk (LR) males without a family history of substance dependence using graph theory-based network analysis...
May 14, 2017: Psychiatry Research
https://www.readbyqxmd.com/read/28531277/genome-wide-discovery-of-viral-micrornas-based-on-phylogenetic-analysis-and-structural-evolution-of-various-human-papillomavirus-subtypes
#2
Shun-Long Weng, Kai-Yao Huang, Julia Tzu-Ya Weng, Fang-Yu Hung, Tzu-Hao Chang, Tzong-Yi Lee
In mammals, microRNAs (miRNAs) play key roles in controlling posttranscriptional regulation through binding to the mRNAs of target genes. Recently, it was discovered that viral miRNAs may be involved in human cancers and diseases. It is likely that viral miRNAs help viruses enter the latent phase of their life cycle and become undetected by the host's immune system, while increasing the host's risk for cancer development. Cervical cancer is typically related to the infection of human papillomavirus (HPV) through sexual transmission...
May 20, 2017: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/28531227/different-microrna-profiles-reveal-the-diverse-outcomes-induced-by-ev71-and-ca16-infection-in-human-umbilical-vein-endothelial-cells-using-high-throughput-sequencing
#3
Jie Song, Yajie Hu, Jiaqi Li, Huiwen Zheng, Jingjing Wang, Lei Guo, Ruotong Ning, Hongzhe Li, Zening Yang, Haitao Fan, Longding Liu
Enterovirus 71 (EV71) and Coxsackievirus A16 (CA16) remain the predominant pathogens in hand, foot, and mouth disease (HFMD), but the factors underlying the pathogenesis of EV71 and CA16 infections have not been elucidated. Recently, the functions of microRNAs (miRNAs) in pathogen-host interactions have been highlighted. In the present study, we performed comprehensive miRNA profiling in EV71- and CA16-infected human umbilical vein endothelial cells (HUVECs) at multiple time points using high-throughput sequencing...
2017: PloS One
https://www.readbyqxmd.com/read/28530547/application-of-machine-learning-approaches-for-protein-protein-interactions-prediction
#4
Mengying Zhang, Qiang Su, Yi Lu, Manman Zhao, Bing Niu
BACKGROUND: Proteomics endeavors to study the structures, functions and interactions of proteins. Information of the protein-protein interactions (PPIs) helps to improve our knowledge of the functions and the 3D structures of proteins. Thus determining the PPIs is essential for the study of the proteomics. OBJECTIVE: In this review, in order to study the application of machine learning in predicting PPI, some machine learning approaches such as support vector machine (SVM), artificial neural networks (ANNs) and random forest (RF) were selected, and the examples of its applications in PPIs were listed...
May 22, 2017: Medicinal Chemistry
https://www.readbyqxmd.com/read/28530228/generic-decoding-of-seen-and-imagined-objects-using-hierarchical-visual-features
#5
Tomoyasu Horikawa, Yukiyasu Kamitani
Object recognition is a key function in both human and machine vision. While brain decoding of seen and imagined objects has been achieved, the prediction is limited to training examples. We present a decoding approach for arbitrary objects using the machine vision principle that an object category is represented by a set of features rendered invariant through hierarchical processing. We show that visual features, including those derived from a deep convolutional neural network, can be predicted from fMRI patterns, and that greater accuracy is achieved for low-/high-level features with lower-/higher-level visual areas, respectively...
May 22, 2017: Nature Communications
https://www.readbyqxmd.com/read/28529878/neuroimaging-in-pre-motor-parkinson-s-disease
#6
REVIEW
Thomas R Barber, Johannes C Klein, Clare E Mackay, Michele T M Hu
The process of neurodegeneration in Parkinson's disease begins long before the onset of clinical motor symptoms, resulting in substantial cell loss by the time a diagnosis can be made. The period between the onset of neurodegeneration and the development of motoric disease would be the ideal time to intervene with disease modifying therapies. This pre-motor phase can last many years, but the lack of a specific clinical phenotype means that objective biomarkers are needed to reliably detect prodromal disease...
2017: NeuroImage: Clinical
https://www.readbyqxmd.com/read/28529720/recent-advances-in-metacommunities-and-meta-ecosystem-theories
#7
REVIEW
Frédéric Guichard
Metacommunity theory has provided many insights into the general problem of local versus regional control of species diversity and relative abundance. The metacommunity framework has been extended from competitive interactions to whole food webs that can be described as spatial networks of interaction networks. Trophic metacommunity theory greatly contributed to resolving the community complexity-stability debate by predicting its dependence on the regional spatial context. The meta-ecosystem framework has since been suggested as a useful simplification of complex ecosystems to apply this spatial context to spatial flows of both individuals and matter...
2017: F1000Research
https://www.readbyqxmd.com/read/28528930/clinical-and-psychosocial-predictors-of-urologic-chronic-pelvic-pain-symptom-change-over-one-year-a-prospective-study-from-the-mapp-research-network
#8
Bruce D Naliboff, Alisa J Stephens, H Henry Lai, James W Griffith, J Quentin Clemens, Susan Lutgendorf, Larissa V Rodriguez, Craig Newcomb, Siobhan Sutcliffe, Wensheng Guo, John W Kusek, J Richard Landis
OBJECTIVE: To examine baseline clinical and psychosocial characteristics that predict 12- month symptom change in men and women with urologic chronic pelvic pain syndromes (UCPPS). METHODS: 221 female and 176 male UCPPS patients were recruited from 6 academic medical centers in the United States and evaluated at baseline with a comprehensive battery of symptom, psychosocial, and illness-impact measures. Based on biweekly symptom reports, a functional clustering procedure classified participant's outcome as worse, stable, or improved on pain and urinary symptom severity...
May 18, 2017: Journal of Urology
https://www.readbyqxmd.com/read/28525877/functional-network-connectivity-predicts-treatment-outcome-during-treatment-of-nicotine-use-disorder
#9
Claire E Wilcox, Vince D Calhoun, Srinivas Rachakonda, Eric D Claus, Rae A Littlewood, Jessica Mickey, Pamela B Arenella, Kent E Hutchison
Altered resting state functional connectivity (rsFC) and functional network connectivity (FNC), which is a measure of coherence between brain networks, may be associated with nicotine use disorder (NUD). We hypothesized that higher connectivity between insula and 1) dorsal anterior cingulate cortex (dACC) and 2) dorsolateral prefrontal cortex (dlPFC) would predict better treatment outcomes. We also performed an exploratory analysis of the associations between FNC values between additional key frontal and striatal regions and treatment outcomes...
April 30, 2017: Psychiatry Research
https://www.readbyqxmd.com/read/28525587/assessing-the-psychedelic-after-glow-in-ayahuasca-users-post-acute-neurometabolic-and-functional-connectivity-changes-are-associated-with-enhanced-mindfulness-capacities
#10
Frederic Sampedro, Mario de la Fuente Revenga, Marta Valle, Natalia Roberto, Elisabet Domínguez-Clavé, Matilde Elices, Luís Eduardo Luna, José Alexandre S Crippa, Jaime E C Hallak, Draulio B de Araujo, Pablo Friedlander, Steven A Barker, Enrique Álvarez, Joaquim Soler, Juan C Pascual, Amanda Feilding, Jordi Riba
Background: Ayahuasca is a plant tea containing the psychedelic 5-HT2A agonist N,N-dimethyltryptamine (DMT) and harmala monoamine-oxidase inhibitors. Acute administration leads to neurophysiological modifications in brain regions of the default mode network (DMN), purportedly through a glutamatergic mechanism. Post-acutely, ayahuasca potentiates mindfulness capacities in volunteers, and induces rapid and sustained antidepressant effects in treatment-resistant patients. However, the mechanisms underlying these fast and maintained effects are poorly understood...
May 19, 2017: International Journal of Neuropsychopharmacology
https://www.readbyqxmd.com/read/28524689/facile-anhydrous-proton-transport-on-hydroxyl-functionalized-graphane
#11
Abhishek Bagusetty, Pabitra Choudhury, Wisssam A Saidi, Bridget Derksen, Elizabeth Gatto, J Karl Johnson
Graphane functionalized with hydroxyl groups is shown to rapidly conduct protons under anhydrous conditions through a contiguous network of hydrogen bonds. Density functional theory calculations predict remarkably low barriers to diffusion of protons along a 1D chain of surface hydroxyls. Diffusion is controlled by the local rotation of hydroxyl groups, a mechanism that is very different from that found in 1D water wires in confined nanopores or in bulk water. The proton mean square displacement in the 1D chain was observed to follow Fickian diffusion rather than the expected single-file mobility...
May 5, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28524240/potential-serum-biomarkers-associated-with-mild-and-severe-leptospirosis-infection-a-cohort-study-in-the-malaysian-population
#12
Tan Xue Ting, Fairuz Binti Amran, Ravindran Thayan, Norazah Ahmad, Roslinda Jaafar, Rahimah Haron, Rafidah Abdullah, Sazwan Reezal Bin Shamsuddin, Nor Suhaila Binti Md Riffin, Puteri Shafinaz Abdul-Rahman
Leptospirosis is an emerging zoonotic infectious disease in Malaysia. The symptoms of leptospirosis vary from mild non-specific flu-like illness to a severe condition which is usually associated with serious complication and fatality. To study the protein expression profile of mild and severe leptospirosis, fifteen paired sera were collected from the patients who were mildly infected and following that progressed to severe stage. The proteome profiles of mild and severe cases were studied using 2DE analysis in combination with LC-MS/MS...
May 19, 2017: Electrophoresis
https://www.readbyqxmd.com/read/28524201/a-computational-framework-for-distinguishing-direct-versus-indirect-interactions-in-human-functional-protein-protein-interaction-networks
#13
Suyu Mei, Erik K Flemington, Kun Zhang
Recognition of indirect interactions is instrumental to in silico reconstruction of signaling pathways and sheds light on the exploration of unknown physical paths between two indirectly interacting genes. However, very limited computational methods have explicitly exploited the indirect interactions with experimental evidence thus far. In this work, we attempt to distinguish direct versus indirect interactions in human functional protein-protein interaction (PPI) networks via a predictive l2-regularized logistic regression model built on the experimental data...
May 19, 2017: Integrative Biology: Quantitative Biosciences From Nano to Macro
https://www.readbyqxmd.com/read/28524153/transcriptome-analysis-of-mirna-lncrna-mrna-interactions-in-the-malignant-transformation-process-of-gastric-cancer-initiation
#14
Y Mao, R Liu, H Zhou, S Yin, Q Zhao, X Ding, H Wang
Gastric cancer is a common heterogeneous malignancy that is pathologically characterized by the development of chronic atrophic gastritis and dysplasia of the epithelium. The pathogenic mechanisms at the molecular level are completely unclear. In the present study, we first address the expression network and miRNA-lncRNA-mRNA interaction in the malignant transformation process from normal mucosa and atrophic gastritis to a tumor. First, the long non-coding RNA (lncRNA), micro RNA (miRNA) and messenger RNA (mRNA) expression profiles of normal gastric mucosa, atrophic gastritis, gastric cancer and the peri-tumor tissues were analyzed using microarrays...
May 19, 2017: Cancer Gene Therapy
https://www.readbyqxmd.com/read/28523607/carotenoid-to-bacteriochlorophyll-energy-transfer-through-vibronic-coupling-in-lh2-from-phaeosprillum-molischianum
#15
Erling Thyrhaug, Craig N Lincoln, Federico Branchi, Giulio Cerullo, Václav Perlík, František Šanda, Heiko Lokstein, Jürgen Hauer
The peripheral light-harvesting antenna complex (LH2) of purple photosynthetic bacteria is an ideal testing ground for models of structure-function relationships due to its well-determined molecular structure and ultrafast energy deactivation. It has been the target for numerous studies in both theory and ultrafast spectroscopy; nevertheless, certain aspects of the convoluted relaxation network of LH2 lack a satisfactory explanation by conventional theories. For example, the initial carotenoid-to-bacteriochlorophyll energy transfer step necessary on visible light excitation was long considered to follow the Förster mechanism, even though transfer times as short as 40 femtoseconds (fs) have been observed...
May 18, 2017: Photosynthesis Research
https://www.readbyqxmd.com/read/28522969/equilibrium-propagation-bridging-the-gap-between-energy-based-models-and-backpropagation
#16
Benjamin Scellier, Yoshua Bengio
We introduce Equilibrium Propagation, a learning framework for energy-based models. It involves only one kind of neural computation, performed in both the first phase (when the prediction is made) and the second phase of training (after the target or prediction error is revealed). Although this algorithm computes the gradient of an objective function just like Backpropagation, it does not need a special computation or circuit for the second phase, where errors are implicitly propagated. Equilibrium Propagation shares similarities with Contrastive Hebbian Learning and Contrastive Divergence while solving the theoretical issues of both algorithms: our algorithm computes the gradient of a well-defined objective function...
2017: Frontiers in Computational Neuroscience
https://www.readbyqxmd.com/read/28521415/bioinformatics-analysis-of-dysregulated-micrornas-in-the-nipple-discharge-of-patients-with-breast-cancer
#17
Kai Zhang, Ya-Wen Wang, Rong Ma
MicroRNAs (miRNAs/miRs) have been reported to be associated with the tumorigenesis and progression of various types of human cancer; however, the underlying mechanisms of this association remain unclear. The aim of the present study was to explore the potential functions of miRNAs in the development of breast cancer using bioinformatics analysis, based on the miRNA expression profile in nipple discharge. A previous study demonstrated the upregulation of miR-3646 and miR-4484, and the downregulation of miR-4732-5p in the nipple discharge of patients with breast cancer, compared with patients with benign breast lesions...
May 2017: Oncology Letters
https://www.readbyqxmd.com/read/28521091/non-magnetic-quantum-emitters-in-boron-nitride-with-ultra-narrow-and-sideband-free-emission-spectra
#18
Xiangzhi Li, Gabriella Donna Shepard, Andrew Cupo, Nicolas Camporeale, Kamran Shayan, Yue Luo, Vincent Meunier, Stefan Strauf
Hexagonal boron nitride (hBN) is an emerging material in nanophotonics and an attractive host for color centers for quantum photonic devices. Here we show that optical emission from individual quantum emitters in hBN is spatially correlated with structural defects and can display ultra-narrow zero-phonon linewidth down to 45 μeV if spectral diffusion is effectively eliminated by proper surface passivation. We demonstrate that undesired emission into phonon sidebands is largely absent for this type of emitter...
May 18, 2017: ACS Nano
https://www.readbyqxmd.com/read/28516504/prognostic-potential-of-midregional-pro-adrenomedullin-following-decompensation-for-systolic-heart-failure-comparison-with-cardiac-natriuretic-peptides
#19
Caroline Morbach, Almuth Marx, Mathias Kaspar, Gülmisal Güder, Susanne Brenner, Carolin Feldmann, Stefan Störk, Jörn O Vollert, Georg Ertl, Christiane E Angermann
AIMS: Whereas guidelines recommend the routine use of natriuretic peptides (NPs) in heart failure (HF) care, the clinical relevance and prognostic potential of midregional pro-adrenomedullin (MR-proADM) is less well established. We aimed to compare the prognostic potential of MR-proADM after acute decompensation for systolic HF with that of N-terminal pro-B-type natriuretic peptide (NT-proBNP) and midregional pro-atrial NP (MR-proANP), to investigate the significance of high/rising MR-proADM, and to evaluate the incremental prognostic yield of repeat measurements...
May 17, 2017: European Journal of Heart Failure
https://www.readbyqxmd.com/read/28515341/bet-bromodomain-inhibition-suppresses-innate-inflammatory-and-profibrotic-transcriptional-networks-in-heart-failure
#20
Qiming Duan, Sarah McMahon, Priti Anand, Hirsh Shah, Sean Thomas, Hazel T Salunga, Yu Huang, Rongli Zhang, Aarathi Sahadevan, Madeleine E Lemieux, Jonathan D Brown, Deepak Srivastava, James E Bradner, Timothy A McKinsey, Saptarsi M Haldar
Despite current standard of care, the average 5-year mortality after an initial diagnosis of heart failure (HF) is about 40%, reflecting an urgent need for new therapeutic approaches. Previous studies demonstrated that the epigenetic reader protein bromodomain-containing protein 4 (BRD4), an emerging therapeutic target in cancer, functions as a critical coactivator of pathologic gene transactivation during cardiomyocyte hypertrophy. However, the therapeutic relevance of these findings to human disease remained unknown...
May 17, 2017: Science Translational Medicine
keyword
keyword
6569
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"