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https://www.readbyqxmd.com/read/28098281/thermodynamic-stability-of-stoichiometric-lafeo3-and-bifeo3-a-hybrid-dft-study
#1
Eugene Heifets, Eugene A Kotomin, Alexander A Bagaturyants, Joachim Maier
BiFeO3 perovskite attracts great attention due to its multiferroic properties and potential use as a parent material for Bi1-xSrxFeO3-δ and Bi1-xSrxFe1-yCoyO3-δ solid solutions in intermediate temperature cathodes of oxide fuel cells. Another iron-based LaFeO3 perovskite is the end member for well-known solid solutions (La1-xSrxFe1-yCoyO3-δ) used for oxide fuel cells and other electrochemical devices. In this study an ab initio hybrid functional approach was used for the study of the thermodynamic stability of both LaFeO3 and BiFeO3 with respect to decompositions to binary oxides and to elements, as a function of temperature and oxygen pressure...
January 18, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28098189/global-identification-of-micrornas-associated-with-chlorantraniliprole-resistance-in-diamondback-moth-plutella-xylostella-l
#2
Bin Zhu, Xiuxia Li, Ying Liu, Xiwu Gao, Pei Liang
The diamondback moth (DBM), Plutella xylostella (L.), is one of the most serious cruciferous pests and has developed high resistance to most insecticides, including chlorantraniliprole. Previous studies have reported several protein-coding genes that involved in chlorantraniliprole resistance, but research on resistance mechanisms at the post-transcription level is still limited. In this study, a global screen of microRNAs (miRNAs) associated with chlorantraniliprole resistance in P. xylostella was performed...
January 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28097495/the-expression-of-hypoxia-inducible-factor-1%C3%AE-gene-is-not-affected-by-low-oxygen-conditions-in-yellow-perch-perca-flavescens-juveniles
#3
Karolina Kwasek, Simona Rimoldi, Anna Giulia Cattaneo, Timothy Parker, Konrad Dabrowski, Genciana Terova
Hypoxia can affect various fish populations, including yellow perch Perca flavescens, which is an economically and ecologically important species in Lake Erie, a freshwater system that often experiences hypoxia in the hypolimnetic part of the lake. Fish, similarly to mammals, possess molecular oxygen sensor-hypoxia-inducible factor-1 (HIF-1), a transcription factor that can affect expression of many downstream genes related to animal growth and locomotion, protein synthesis, as well as ATP and amino acid metabolism...
January 18, 2017: Fish Physiology and Biochemistry
https://www.readbyqxmd.com/read/28097215/an-ambiguity-principle-for-assigning-protein-structural-domains
#4
Guillaume Postic, Yassine Ghouzam, Romain Chebrek, Jean-Christophe Gelly
Ambiguity is the quality of being open to several interpretations. For an image, it arises when the contained elements can be delimited in two or more distinct ways, which may cause confusion. We postulate that it also applies to the analysis of protein three-dimensional structure, which consists in dividing the molecule into subunits called domains. Because different definitions of what constitutes a domain can be used to partition a given structure, the same protein may have different but equally valid domain annotations...
January 2017: Science Advances
https://www.readbyqxmd.com/read/28097057/a-gene-expression-study-of-dorso-ventrally-restricted-pigment-pattern-in-adult-fins-of-neolamprologus-meeli-an-african-cichlid-species
#5
Ehsan Pashay Ahi, Kristina M Sefc
Fish color patterns are among the most diverse phenotypic traits found in the animal kingdom. Understanding the molecular and cellular mechanisms that control in chromatophore distribution and pigmentation underlying this diversity is a major goal in developmental and evolutionary biology, which has predominantly been pursued in the zebrafish model system. Here, we apply results from zebrafish work to study a naturally occurring color pattern phenotype in the fins of an African cichlid species from Lake Tanganyika...
2017: PeerJ
https://www.readbyqxmd.com/read/28095895/genome-wide-snp-analysis-using-2b-rad-sequencing-identifies-the-candidate-genes-putatively-associated-with-resistance-to-ivermectin-in-haemonchus-contortus
#6
Xiaoping Luo, Xiaona Shi, Chunxiu Yuan, Min Ai, Cheng Ge, Min Hu, Xingang Feng, Xiaoye Yang
BACKGROUND: The excessive and uncontrolled use of anthelmintics, e.g. ivermectin (IVM) for the treatment of livestock parasites has led to widespread resistance in gastrointestinal nematodes, such as Haemonchus contortus. There is an urgent need for better management of drug-use in nematode control and development of novel anthelmintics. Discovery and identification of anthelmintic resistance-associate molecules/markers can provide a basis for rational anthelmintics-use and development of novel drugs...
January 17, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28095775/ara-peps-a-repository-of-putative-sorf-encoded-peptides-in-arabidopsis-thaliana
#7
Rashmi R Hazarika, Barbara De Coninck, Lidia R Yamamoto, Laura R Martin, Bruno P A Cammue, Vera van Noort
BACKGROUND: Many eukaryotic RNAs have been considered non-coding as they only contain short open reading frames (sORFs). However, there is increasing evidence for the translation of these sORFs into bioactive peptides with potent signaling, antimicrobial, developmental, antioxidant roles etc. Yet only a few peptides encoded by sORFs are annotated in the model organism Arabidopsis thaliana. RESULTS: To aid the functional annotation of these peptides, we have developed ARA-PEPs (available at http://www...
January 17, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28095733/decoding-crucial-lncrnas-implicated-in-neurogenesis-and-neurological-disorders
#8
R Ayana, Shailja Singh, Soumya Pati
Unraveling transcriptional heterogeneity and the labyrinthine nature of neurodevelopment can probe insights into neuropsychiatric disorders. It is noteworthy that adult neurogenesis is restricted to the Sub Ventricular and Sub Granular zones (SVZ/SGZ) of the brain. Recent studies suggest long non-coding RNAs (lncRNAs) as an avant-garde class of regulators implicated in neurodevelopment. But, paucity exists in the knowledge regarding lncRNAs in neurogenesis and their associations with neurodevelopmental defects...
January 17, 2017: Stem Cells and Development
https://www.readbyqxmd.com/read/28095328/an-integrated-proteomic-and-transcriptomic-analysis-of-perivitelline-fluid-proteins-in-a-freshwater-gastropod-laying-aerial-eggs
#9
Huawei Mu, Jin Sun, Horacio Heras, Ka Hou Chu, Jian-Wen Qiu
: Proteins of the egg perivitelline fluid (PVF) that surrounds the embryo are critical for embryonic development in many animals, but little is known about their identities. Using an integrated proteomic and transcriptomic approach, we identified 64 proteins from the PVF of Pomacea maculata - a freshwater snail adopting aerial oviposition. Proteins were classified into eight functional groups: major multifunctional perivitellin subunits, immune response, energy metabolism, protein degradation, oxidation-reduction, signaling and binding, transcription and translation, and others...
January 14, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28095193/semisupervised-multilabel-multi-instance-learning-for-structured-data
#10
Hossein Soleimani, David J Miller
Many classification tasks require both labeling objects and determining label associations for parts of each object. Example applications include labeling segments of images or determining relevant parts of a text document when the training labels are available only at the image or document level. This task is usually referred to as multi-instance (MI) learning, where the learner typically receives a collection of labeled (or sometimes unlabeled) bags, each containing several segments (instances). We propose a semisupervised MI learning method for multilabel classification...
January 17, 2017: Neural Computation
https://www.readbyqxmd.com/read/28094815/drd2-co-expression-network-and-a-related-polygenic-index-predict-imaging-behavioral-and-clinical-phenotypes-linked-to-schizophrenia
#11
G Pergola, P Di Carlo, E D'Ambrosio, B Gelao, L Fazio, M Papalino, A Monda, G Scozia, B Pietrangelo, M Attrotto, J A Apud, Q Chen, V S Mattay, A Rampino, G Caforio, D R Weinberger, G Blasi, A Bertolino
Genetic risk for schizophrenia (SCZ) is determined by many genetic loci whose compound biological effects are difficult to determine. We hypothesized that co-expression pathways of SCZ risk genes are associated with system-level brain function and clinical phenotypes of SCZ. We examined genetic variants related to the dopamine D2 receptor gene DRD2 co-expression pathway and associated them with working memory (WM) behavior, the related brain activity and treatment response. Using two independent post-mortem prefrontal messenger RNA (mRNA) data sets (total N=249), we identified a DRD2 co-expression pathway enriched for SCZ risk genes...
January 17, 2017: Translational Psychiatry
https://www.readbyqxmd.com/read/28093550/experience-dependent-homeostasis-of-noise-at-inhibitory-synapses-preserves-information-coding-in-adult-visual-cortex
#12
Ming Gao, Jessica L Whitt, Shiyong Huang, Angela Lee, Stefan Mihalas, Alfredo Kirkwood, Hey-Kyoung Lee
Synapses are intrinsically 'noisy' in that neurotransmitter is occasionally released in the absence of an action potential. At inhibitory synapses, the frequency of action potential-independent release is orders of magnitude higher than that at excitatory synapses raising speculations that it may serve a function. Here we report that the frequency of action potential-independent inhibitory synaptic 'noise' (i.e. miniature inhibitory postsynaptic currents, mIPSCs) is highly regulated by sensory experience in visual cortex...
March 5, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28093409/deuterater-a-tool-for-quantifying-peptide-isotope-precision-and-kinetic-proteomics
#13
Bradley C Naylor, Michael T Porter, Elise Wilson, Adam Herring, Spencer Lofthouse, Austin Hannemann, Stephen R Piccolo, Alan L Rockwood, John C Price
MOTIVATION: Using mass spectrometry to measure the concentration and turnover of the individual proteins in a proteome, enables the calculation of individual synthesis and degradation rates for each protein. Software to analyze concentration is readily available, but software to analyze turnover is lacking. Data analysis workflows typically don't access the full breadth of information about instrument precision and accuracy that is present in each peptide isotopic envelope measurement...
January 16, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28093405/distributedfba-jl-high-level-high-performance-flux-balance-analysis-in-julia
#14
Laurent Heirendt, Ines Thiele, Ronan M T Fleming
MOTIVATION: Flux balance analysis, and its variants, are widely used methods for predicting steady-state reaction rates in biochemical reaction networks. The exploration of high dimensional networks with such methods is currently hampered by software performance limitations. RESULTS: DistributedFBA.jl is a high-level, high-performance, open-source implementation of flux balance analysis in Julia. It is tailored to solve multiple flux balance analyses on a subset or all the reactions of large and huge-scale networks, on any number of threads or nodes...
January 16, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28092810/expectation-and-futurity-the-remarkable-success-of-genetic-determinism
#15
Maurizio Esposito
Genetic determinism is nowadays largely questioned and widely criticized. However, if we look at the history of biology in the last one hundred years, we realize that genetic determinism has always been controversial. Why, then, did it acquire such relevance in the past despite facing longstanding criticism? Through the analysis of some of the ambitious expectations of future scientific applications, this article explores the possibility that part of the historical success of genetic determinism lies in the powerful rhetorical strategies that have connected the germinal matter with alluring bio-technological visions...
January 13, 2017: Studies in History and Philosophy of Biological and Biomedical Sciences
https://www.readbyqxmd.com/read/28092547/asymmetrically-compressed-stereoscopic-3d-videos-quality-assessment-and-rate-distortion-performance-evaluation
#16
Jiheng Wang, Shiqi Wang, Zhou Wang
Objective quality assessment of stereoscopic 3D video is challenging but highly desirable, especially in the application of stereoscopic video compression and transmission, where useful quality models are missing that can guide the critical decision making steps in the selection of mixed-resolution coding, asymmetric quantization, and pre- and post-processing schemes. Here we first carry out subjective quality assessment experiments on two databases that contain various asymmetrically compressed stereoscopic 3D videos obtained from mixed-resolution coding, asymmetric transform-domain quantization coding, their combinations, and multiple choices of postprocessing techniques...
January 11, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
https://www.readbyqxmd.com/read/28092296/qualitative-analysis-of-parental-observations-on-quality-of-life-in-australian-children-with-down-syndrome
#17
Nada Murphy, Amy Epstein, Helen Leonard, Elise Davis, Dinah Reddihough, Andrew Whitehouse, Peter Jacoby, Jenny Bourke, Katrina Williams, Jenny Downs
OBJECTIVE: There are many challenges to health, functioning, and participation for children with Down syndrome; yet, the quality-of-life (QOL) domains important for this group have never been clearly articulated. This study investigated parental observations to identify QOL domains in children with Down syndrome and determined whether domains differed between children and adolescents. METHODS: The sample comprised 17 families whose child with Down syndrome was aged 6 to 18 years...
January 12, 2017: Journal of Developmental and Behavioral Pediatrics: JDBP
https://www.readbyqxmd.com/read/28091803/a-study-of-hyperelastic-models-for-predicting-the-mechanical-behavior-of-extensor-apparatus
#18
Nahid Elyasi, Kimia Karimi Taheri, Keivan Narooei, Ali Karimi Taheri
In this research, the nonlinear elastic behavior of human extensor apparatus was investigated. To this goal, firstly the best material parameters of hyperelastic strain energy density functions consisting of the Mooney-Rivlin, Ogden, invariants, and general exponential models were derived for the simple tension experimental data. Due to the significance of stress response in other deformation modes of nonlinear models, the calculated parameters were used to study the pure shear and balance biaxial tension behavior of the extensor apparatus...
January 16, 2017: Biomechanics and Modeling in Mechanobiology
https://www.readbyqxmd.com/read/28089742/multiple-habp2-variants-in-familial-papillary-thyroid-carcinoma-contribution-of-a-group-of-thyroid-checked-controls
#19
Benjamin Kern, Lucie Coppin, Pauline Romanet, Michel Crépin, Isabelle Szuster, Florence Renaud, Emmanuelle Leteurtre, Frédéric Frénois, Jean-Louis Wemeau, Bruno Carnaille, Catherine Cardot-Bauters, Christine Do Cao, Pascal Pigny
A heterozygous germline variant in the HABP2 gene c.1601G > A (p.Gly534Glu), which negatively impacts its tumor suppressive activity in vitro, has been described in 4-14% of kindreds of European-American ancestry with familial papillary thyroid carcinoma (fPTC). But it is also found in ≈4% of Europeans and European/Americans from public databases that, however, did not provide information on the thyroid function of the controls. To get unbiased results, we decided to compare HABP2 genotypes of patients with fPTC with those of "thyroid-checked" controls...
January 9, 2017: European Journal of Medical Genetics
https://www.readbyqxmd.com/read/28089252/practical-approaches-for-whole-genome-sequence-analysis-of-heart-and-blood-related-traits
#20
Alanna C Morrison, Zhuoyi Huang, Bing Yu, Ginger Metcalf, Xiaoming Liu, Christie Ballantyne, Josef Coresh, Fuli Yu, Donna Muzny, Elena Feofanova, Navin Rustagi, Richard Gibbs, Eric Boerwinkle
Whole-genome sequencing (WGS) allows for a comprehensive view of the sequence of the human genome. We present and apply integrated methodologic steps for interrogating WGS data to characterize the genetic architecture of 10 heart- and blood-related traits in a sample of 1,860 African Americans. In order to evaluate the contribution of regulatory and non-protein coding regions of the genome, we conducted aggregate tests of rare variation across the entire genomic landscape using a sliding window, complemented by an annotation-based assessment of the genome using predefined regulatory elements and within the first intron of all genes...
January 5, 2017: American Journal of Human Genetics
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