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https://www.readbyqxmd.com/read/28717940/alopecia-areata-a-comprehensive-review-of-pathogenesis-and-management
#1
REVIEW
Ralph M Trüeb, Maria Fernanda Reis Gavazzoni Dias
Alopecia areata is a common hair loss condition that is characterized by acute onset of non-scarring hair loss in usually sharply defined areas ranging from small patches to extensive or less frequently diffuse involvement. Depending on its acuity and extent, hair loss is an important cause of anxiety and disability. The current understanding is that the condition represents an organ-specific autoimmune disease of the hair follicle with a genetic background. Genome-wide association studies provide evidence for the involvement of both innate and acquired immunity in the pathogenesis, and mechanistic studies in mouse models of alopecia areata have specifically implicated an IFN-γ-driven immune response, including IFNγ, IFNγ-induced chemokines and cytotoxic CD8 T cells as the main drivers of disease pathogenesis...
July 17, 2017: Clinical Reviews in Allergy & Immunology
https://www.readbyqxmd.com/read/28717844/application-of-the-biopsy-sparing-espghan-guidelines-for-celiac-disease-diagnosis-in-adults-a-real-life-study
#2
Konstantinos Efthymakis, Mariaelena Serio, Angelo Milano, Francesco Laterza, Antonella Bonitatibus, Marta Di Nicola, Matteo Neri
BACKGROUND: Current adult celiac disease diagnosis requires histological confirmation. However, pediatric guidelines have proposed biopsy-sparing algorithms. AIMS: To explore the applicability of the ESPGHAN criteria and assess the accuracy of serology in predicting disease in adults. METHODS: We evaluated 234 consecutive adults showing elevated anti-tTG titers, EMA-positivity, and genetic susceptibility. Patients underwent upper endoscopy with duodenal biopsy...
July 17, 2017: Digestive Diseases and Sciences
https://www.readbyqxmd.com/read/28717384/accelerating-root-system-phenotyping-of-seedlings-through-a-computer-assisted-processing-pipeline
#3
Lionel X Dupuy, Gladys Wright, Jacqueline A Thompson, Anna Taylor, Sebastien Dekeyser, Christopher P White, William T B Thomas, Mark Nightingale, John P Hammond, Neil S Graham, Catherine L Thomas, Martin R Broadley, Philip J White
BACKGROUND: There are numerous systems and techniques to measure the growth of plant roots. However, phenotyping large numbers of plant roots for breeding and genetic analyses remains challenging. One major difficulty is to achieve high throughput and resolution at a reasonable cost per plant sample. Here we describe a cost-effective root phenotyping pipeline, on which we perform time and accuracy benchmarking to identify bottlenecks in such pipelines and strategies for their acceleration...
2017: Plant Methods
https://www.readbyqxmd.com/read/28716714/functional-density-and-edge-maps-characterizing-functional-architecture-in-individuals-and-improving-cross-subject-registration
#4
Tong Tong, Iman Aganj, Tian Ge, Jonathan R Polimeni, Bruce Fischl
Population-level inferences and individual-level analyses are two important aspects in functional magnetic resonance imaging (fMRI) studies. Extracting reliable and informative features from fMRI data that capture biologically meaningful inter-subject variation is critical for aligning and comparing functional networks across subjects, and connecting the properties of functional brain organization with variations in behavior, cognition and genetics. In this study, we derive two new measures, which we term functional density map and edge map, and demonstrate their usefulness in characterizing the function of individual brains...
July 14, 2017: NeuroImage
https://www.readbyqxmd.com/read/28716126/the-effects-of-potato-virus-y-derived-virus-small-interfering-rnas-of-three-biologically-distinct-strains-on-potato-solanum-tuberosum-transcriptome
#5
Lindani Moyo, Shunmugiah V Ramesh, Madhu Kappagantu, Neena Mitter, Vidyasagar Sathuvalli, Hanu R Pappu
BACKGROUND: Potato virus Y (PVY) is one of the most economically important pathogen of potato that is present as biologically distinct strains. The virus-derived small interfering RNAs (vsiRNAs) from potato cv. Russet Burbank individually infected with PVY-N, PVY-NTN and PVY-O strains were recently characterized. Plant defense RNA-silencing mechanisms deployed against viruses produce vsiRNAs to degrade homologous viral transcripts. Based on sequence complementarity, the vsiRNAs can potentially degrade host RNA transcripts raising the prospect of vsiRNAs as pathogenicity determinants in virus-host interactions...
July 17, 2017: Virology Journal
https://www.readbyqxmd.com/read/28714987/comparison-of-algorithms-for-the-detection-of-cancer-drivers-at-subgene-resolution
#6
Eduard Porta-Pardo, Atanas Kamburov, David Tamborero, Tirso Pons, Daniela Grases, Alfonso Valencia, Nuria Lopez-Bigas, Gad Getz, Adam Godzik
Understanding genetic events that lead to cancer initiation and progression remains one of the biggest challenges in cancer biology. Traditionally, most algorithms for cancer-driver identification look for genes that have more mutations than expected from the average background mutation rate. However, there is now a wide variety of methods that look for nonrandom distribution of mutations within proteins as a signal for the driving role of mutations in cancer. Here we classify and review such subgene-resolution algorithms, compare their findings on four distinct cancer data sets from The Cancer Genome Atlas and discuss how predictions from these algorithms can be interpreted in the emerging paradigms that challenge the simple dichotomy between driver and passenger genes...
July 17, 2017: Nature Methods
https://www.readbyqxmd.com/read/28713862/metabolic-surgery-gastric-bypass-for-the-treatment-of-type-2-diabetes-mellitus
#7
REVIEW
Maria Del Pilar Quevedo, Mariano Palermo, Edgardo Serra, Marianela A Ackermann
Type 2 diabetes mellitus (T2DM) is one of the largest health emergencies of the 21st century given the worldwide increase of obesity during the last decades and its close association. T2DM is an inherited, polygenic and chronic disease caused by the interaction between several genetic variants in genes and the environment. The continuous search for new and more effective tools to achieve appropriate glycemic control became imperative in order to reduce long-term complications and mortality rates related to T2DM...
2017: Translational Gastroenterology and Hepatology
https://www.readbyqxmd.com/read/28710909/evaluation-of-the-interaction-between-genetic-variants-of-gad1-and-mirna-in-bipolar-disorders
#8
Yu-Chu Ella Chung, Shao-Chien Chen, Li-Chung Chuang, Wei-Liang Shih, Yi-Hang Chiu, Mong-Liang Lu, Hsi-Chung Chen, Po-Hsiu Kuo
BACKGROUND: Glutamic acid dehydrogenase 1 (GAD1) serves as the rate-limiting enzyme for synthesizing GABA, and is reported to be associated with several psychiatric disorders. The present study examined the effects of GAD1 genetic variants on bipolar disorder (BD) and its subtypes. Moreover, we investigated functional interactions between genetic variants and miRNAs via algorithm prediction and experimental validation. METHODS: A case-control study was conducted with 280 BD patients and 200 healthy controls...
July 10, 2017: Journal of Affective Disorders
https://www.readbyqxmd.com/read/28708399/development-and-validation-of-a-computational-model-ensemble-for-the-early-detection-of-bcrp-abcg2-substrates-during-the-drug-design-stage
#9
Melisa Edith Gantner, Roxana Noemí Peroni, Juan Francisco Morales, María Luisa Villalba, María Esperanza Ruiz, Alan Talevi
Breast Cancer Resistance Protein (BCRP) is an ATP-dependent efflux transporter linked to the multidrug resistance phenomenon in many diseases such as epilepsy and cancer, and a potential source of drug interactions. For those reasons, the early identification of substrates and non-substrates of this transporter during the drug discovery stage is of great interest. We have developed a computational non-linear model ensemble based on conformational independent molecular descriptors using a combined strategy of genetic algorithms, J48 decision tree classifiers and data fusion...
July 14, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28707299/detection-of-gene-environment-interactions-in-a-family-based-population-using-scad
#10
Gwangsu Kim, Chao-Qiang Lai, Donna K Arnett, Laurence D Parnell, Jose M Ordovas, Yongdai Kim, Joungyoun Kim
Gene-environment interaction (GxE) is emphasized as one potential source of missing genetic variation on disease traits, and the ultimate goal of GxE research is prediction of individual risk and prevention of complex diseases. However, there are various challenges in statistical analysis of GxE. In this paper, we focus on the three methodological challenges: (i) the high dimensions of genes; (ii) the hierarchical structure between interaction effects and their corresponding main effects; and (iii) the correlation among subjects from family-based population studies...
July 13, 2017: Statistics in Medicine
https://www.readbyqxmd.com/read/28705533/characterization-and-prediction-of-the-backscattered-form-function-of-an-immersed-cylindrical-shell-using-hybrid-fuzzy-clustering-and-bio-inspired-algorithms
#11
Said Agounad, El Houcein Aassif, Younes Khandouch, Gérard Maze, Dominique Décultot
The acoustic scattering of a plane wave by an elastic cylindrical shell is studied. A new approach is developed to predict the form function of an immersed cylindrical shell of the radius ratio b/a ('b' is the inner radius and 'a' is the outer radius). The prediction of the backscattered form function is investigated by a combined approach between fuzzy clustering algorithms and bio-inspired algorithms. Four famous fuzzy clustering algorithms: the fuzzy c-means (FCM), the Gustafson-Kessel algorithm (GK), the fuzzy c-regression model (FCRM) and the Gath-Geva algorithm (GG) are combined with particle swarm optimization and genetic algorithm...
June 20, 2017: Ultrasonics
https://www.readbyqxmd.com/read/28705512/multi-objective-optimization-of-nitinol-stent-design
#12
G Alaimo, F Auricchio, M Conti, M Zingales
Nitinol stents continuously experience loadings due to pulsatile pressure, thus a given stent design should possess an adequate fatigue strength and, at the same time, it should guarantee a sufficient vessel scaffolding. The present study proposes an optimization framework aiming at increasing the fatigue life reducing the maximum strut strain along the structure through a local modification of the strut profile.The adopted computational framework relies on nonlinear structural finite element analysis combined with a Multi Objective Genetic Algorithm, based on Kriging response surfaces...
July 10, 2017: Medical Engineering & Physics
https://www.readbyqxmd.com/read/28704380/molecular-investigation-by-whole-exome-sequencing-revealed-a-high-proportion-of-pathogenic-variants-among-thai-victims-of-sudden-unexpected-death-syndrome
#13
Bhoom Suktitipat, Sakda Sathirareuangchai, Ekkapong Roothumnong, Wanna Thongnoppakhun, Purin Wangkiratikant, Nutchavadee Vorasan, Rungroj Krittayaphong, Manop Pithukpakorn, Warangkna Boonyapisit
INTRODUCTION: Sudden unexpected death syndrome (SUDS) is an important cause of death in young healthy adults with a high incident rate in Southeast Asia; however, there are no molecular autopsy reports about these victims. We performed a combination of both a detailed autopsy and a molecular autopsy by whole exome sequencing (WES) to investigate the cause of SUDS in Thai sudden death victims. MATERIALS AND METHODS: A detailed forensic autopsy was performed to identify the cause of death, followed by a molecular autopsy, in 42 sudden death victims who died between January 2015 and August 2015...
2017: PloS One
https://www.readbyqxmd.com/read/28700903/computer-based-classification-of-chromoendoscopy-images-using-homogeneous-texture-descriptors
#14
Hussam Ali, Muhammad Sharif, Mussarat Yasmin, Mubashir Husain Rehmani
Computer-aided analysis of clinical pathologies is a challenging task in the field of medical imaging. Specifically, the detection of abnormal regions in the frames collected during an endoscopic session is difficult. The variations in the conditions of image acquisition, such as field of view or illumination modification, make it more demanding. Therefore, the design of a computer-assisted diagnostic system for the recognition of gastric abnormalities requires features that are robust to scale, rotation, and illumination variations of the images...
July 5, 2017: Computers in Biology and Medicine
https://www.readbyqxmd.com/read/28696921/aspsirna-a-resource-of-asp-sirnas-having-therapeutic-potential-for-human-genetic-disorders-and-algorithm-for-prediction-of-their-inhibitory-efficacy
#15
Isha Monga, Abid Qureshi, Nishant Thakur, Amit Kumar Gupta, Manoj Kumar
Allele-specific siRNAs (ASP-siRNAs) have emerged as promising therapeutic molecules owing to their selectivity to inhibit the mutant allele or associated single nucleotide polymorphisms (SNPs) sparing the expression of the wild-type counterpart. Thus, a dedicated bioinformatics platform encompassing updated ASP-siRNAs and an algorithm for the prediction of their inhibitory efficacy will be helpful in tackling currently intractable genetic disorders. In the present study, we have developed the ASPsiRNA resource (http://crdd...
July 10, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28696685/modeling-sequence-dependent-peptide-fluctuations-in-immunologic-recognition
#16
Cory M Ayres, Timothy P Riley, Steven A Corcelli, Brian M Baker
In cellular immunity, T cells recognize peptide antigens bound and presented by major histocompatibility complex (MHC) proteins. The motions of peptides bound to MHC play a significant role in determining immunogenicity. However, existing approaches for investigating peptide/MHC motional dynamics are challenging or of low throughput, hindering the development of algorithms for predicting immunogenicity from large databases, such as those of tumor or genetically unstable viral genomes. We addressed this by performing exhaustive molecular dynamics simulations on a large structural database of peptides bound to the most commonly expressed human class I MHC protein, HLA-A*0201...
July 11, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28696413/genome-wide-meta-analysis-of-copy-number-variations-with-alcohol-dependence
#17
A Sulovari, Z Liu, Z Zhu, D Li
Genetic association studies and meta-analyses of alcohol dependence (AD) have reported AD-associated single nucleotide polymorphisms (SNPs). These SNPs collectively account for a small portion of estimated heritability in AD. Recent genome-wide copy number variation (CNV) studies have identified CNVs associated with AD and substance dependence, suggesting that a portion of the missing heritability is explained by CNV. We applied PennCNV and QuantiSNP CNV calling algorithms to identify consensus CNVs in five AD cohorts of European and African origins...
July 11, 2017: Pharmacogenomics Journal
https://www.readbyqxmd.com/read/28696377/task-assignment-and-path-planning-for-multiple-autonomous-underwater-vehicles-using-3d-dubins-curves-%C3%A2
#18
Wenyu Cai, Meiyan Zhang, Yahong Rosa Zheng
This paper investigates the task assignment and path planning problem for multiple AUVs in three dimensional (3D) underwater wireless sensor networks where nonholonomic motion constraints of underwater AUVs in 3D space are considered. The multi-target task assignment and path planning problem is modeled by the Multiple Traveling Sales Person (MTSP) problem and the Genetic Algorithm (GA) is used to solve the MTSP problem with Euclidean distance as the cost function and the Tour Hop Balance (THB) or Tour Length Balance (TLB) constraints as the stop criterion...
July 11, 2017: Sensors
https://www.readbyqxmd.com/read/28696268/personalizing-risk-stratification-for-sudden-death-in-dilated-cardiomyopathy-the-past-present-and-future
#19
REVIEW
Brian P Halliday, John G F Cleland, Jeffrey J Goldberger, Sanjay K Prasad
Results from the DANISH Study (Danish Study to Assess the Efficacy of ICDs in Patients With Non-Ischemic Systolic Heat Failure on Mortality) suggest that for many patients with dilated cardiomyopathy (DCM), implantable cardioverter-defibrillators do not increase longevity. Accurate identification of patients who are more likely to die of an arrhythmia and less likely to die of other causes is required to ensure improvement in outcomes and wise use of resources. Until now, left ventricular ejection fraction has been used as a key criterion for selecting patients with DCM for an implantable cardioverter-defibrillator for primary prevention purposes...
July 11, 2017: Circulation
https://www.readbyqxmd.com/read/28694848/epiaco-a-method-for-identifying-epistasis-based-on-ant-colony-optimization-algorithm
#20
Yingxia Sun, Junliang Shang, Jin-Xing Liu, Shengjun Li, Chun-Hou Zheng
BACKGROUND: Identifying epistasis or epistatic interactions, which refer to nonlinear interaction effects of single nucleotide polymorphisms (SNPs), is essential to understand disease susceptibility and to detect genetic architectures underlying complex diseases. Though many works have been done for identifying epistatic interactions, due to their methodological and computational challenges, the algorithmic development is still ongoing. RESULTS: In this study, a method epiACO is proposed to identify epistatic interactions, which based on ant colony optimization algorithm...
2017: BioData Mining
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