keyword
MENU ▼
Read by QxMD icon Read
search

Parallel processing

keyword
https://www.readbyqxmd.com/read/28339613/a-nonsense-mutation-in-ccdc62-gene-is-responsible-for-spermiogenesis-defects-and-male-infertility-in-repro29-repro29-mice%C3%A2
#1
Yuchi Li, Cailing Li, Shouren Lin, Bo Yang, Weiren Huang, Hanwei Wu, Yuanbin Chen, Lihua Yang, Manling Luo, Huan Guo, Jianbo Chen, Tiantian Wang, Qian Ma, Yanli Gu, Lisha Mou, Zhimao Jiang, Jun Xia, Yaoting Gui
Phenotype-driven mutagenesis is an unbiased method to identify novel genes involved in spermatogenesis and other reproductive processes. Male repro29/repro29 mice generated by the Reproductive Genomics Program at the Jackson Laboratory were infertile with deformed sperm and poor motility. Using selected exonic capture and massively parallel sequencing technologies, we identified a nonsense mutation in the exon 6 of coiled-coil domain-containing 62 gene (Ccdc62), which results in a formation of a premature stop codon and a truncated protein...
January 28, 2017: Biology of Reproduction
https://www.readbyqxmd.com/read/28338930/expath-tool-a-system-for-comprehensively-analyzing-regulatory-pathways-and-coexpression-networks-from-high-throughput-transcriptome-data
#2
Han-Qin Zheng, Nai-Yun Wu, Chi-Nga Chow, Kuan-Chieh Tseng, Chia-Hung Chien, Yu-Cheng Hung, Guan-Zhen Li, Wen-Chi Chang
Next generation sequencing (NGS) has become the mainstream approach for monitoring gene expression levels in parallel with various experimental treatments. Unfortunately, there is no systematical webserver to comprehensively perform further analysis based on the huge amount of preliminary data that is obtained after finishing the process of gene annotation. Therefore, a user-friendly and effective system is required to mine important genes and regulatory pathways under specific conditions from high-throughput transcriptome data...
March 13, 2017: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes
https://www.readbyqxmd.com/read/28338655/evolution-of-caspase-mediated-cell-death-and-differentiation-twins-separated-at-birth
#3
REVIEW
Ryan A V Bell, Lynn A Megeney
The phenotypic and biochemical similarities between caspase-mediated apoptosis and cellular differentiation are striking. They include such diverse phenomenon as mitochondrial membrane perturbations, cytoskeletal rearrangements and DNA fragmentation. The parallels between the two disparate processes suggest some common ancestry and highlight the paradoxical nature of the death-centric view of caspases. That is, what is the driving selective pressure that sustains death-inducing proteins throughout eukaryotic evolution? Plausibly, caspase function may be rooted in a primordial non-death function, such as cell differentiation, and was co-opted for its role in programmed cell death...
March 24, 2017: Cell Death and Differentiation
https://www.readbyqxmd.com/read/28338079/dissecting-mirna-gene-repression-on-single-cell-level-with-an-advanced-fluorescent-reporter-system
#4
Nicolas Lemus-Diaz, Kai O Böker, Ignacio Rodriguez-Polo, Michael Mitter, Jasmin Preis, Maximilian Arlt, Jens Gruber
Despite major advances on miRNA profiling and target predictions, functional readouts for endogenous miRNAs are limited and frequently lead to contradicting conclusions. Numerous approaches including functional high-throughput and miRISC complex evaluations suggest that the functional miRNAome differs from the predictions based on quantitative sRNA profiling. To resolve the apparent contradiction of expression versus function, we generated and applied a fluorescence reporter gene assay enabling single cell analysis...
March 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28337841/yeast-aquaporin-regulation-by-4-hydroxynonenal-is-implicated-in-oxidative-stress-response
#5
Claudia Rodrigues, Ivana Tartaro Bujak, Branka Mihaljević, Graça Soveral, Ana Cipak Gasparovic
Reactive oxygen species, especially hydrogen peroxide (H2 O2 ), contribute to functional molecular impairment and cellular damage, but also are necessary in normal cellular metabolism, and in low doses play stimulatory role in cell proliferation and stress resistance. In parallel, reactive aldehydes such as 4-hydroxynonenal (HNE), are lipid peroxidation breakdown products which also contribute to regulation of numerous cellular processes. Recently, channeling of H2 O2 by some mammalian aquaporin isoforms has been reported and suggested to contribute to aquaporin involvement in cancer malignancies, although the mechanism by which these membrane water channels are implicated in oxidative stress is not clear...
March 24, 2017: IUBMB Life
https://www.readbyqxmd.com/read/28337675/an-ontology-based-search-engine-for-digital-reconstructions-of-neuronal-morphology
#6
Sridevi Polavaram, Giorgio A Ascoli
Neuronal morphology is extremely diverse across and within animal species, developmental stages, brain regions, and cell types. This diversity is functionally important because neuronal structure strongly affects synaptic integration, spiking dynamics, and network connectivity. Digital reconstructions of axonal and dendritic arbors are thus essential to quantify and model information processing in the nervous system. NeuroMorpho.Org is an established repository containing tens of thousands of digitally reconstructed neurons shared by several hundred laboratories worldwide...
March 23, 2017: Brain Informatics
https://www.readbyqxmd.com/read/28335810/structured-relearning-of-activities-of-daily-living-in-dementia-the-randomized-controlled-redali-dem-trial-on-errorless-learning
#7
Sebastian Voigt-Radloff, Maartje M E de Werd, Rainer Leonhart, Danielle H E Boelen, Marcel G M Olde Rikkert, Klaus Fliessbach, Stefan Klöppel, Bernhard Heimbach, Andreas Fellgiebel, Richard Dodel, Gerhard W Eschweiler, Lucrezia Hausner, Roy P C Kessels, Michael Hüll
BACKGROUND: Errorless learning (EL) is a method for optimizing learning, which uses feed-forward instructions in order to prevent people from making mistakes during the learning process. The majority of previous studies on EL taught patients with dementia artificial tasks of little or no relevance for their daily lives. Furthermore, only a few controlled studies on EL have so far been performed and just a handful of studies have examined the long-term effects of EL. Tasks were not always trained in the patients' natural or home environment, limiting the external validity of these studies...
March 23, 2017: Alzheimer's Research & Therapy
https://www.readbyqxmd.com/read/28335799/convergent-and-sequential-synthesis-designs-implications-for-conducting-and-reporting-systematic-reviews-of-qualitative-and-quantitative-evidence
#8
Quan Nha Hong, Pierre Pluye, Mathieu Bujold, Maggy Wassef
BACKGROUND: Systematic reviews of qualitative and quantitative evidence can provide a rich understanding of complex phenomena. This type of review is increasingly popular, has been used to provide a landscape of existing knowledge, and addresses the types of questions not usually covered in reviews relying solely on either quantitative or qualitative evidence. Although several typologies of synthesis designs have been developed, none have been tested on a large sample of reviews. The aim of this review of reviews was to identify and develop a typology of synthesis designs and methods that have been used and to propose strategies for synthesizing qualitative and quantitative evidence...
March 23, 2017: Systematic Reviews
https://www.readbyqxmd.com/read/28335024/impaired-dual-tasking-in-parkinson-s-disease-is-associated-with-reduced-focusing-of-cortico-striatal-activity
#9
Freek Nieuwhof, Bastiaan R Bloem, Miriam F Reelick, Esther Aarts, Inbal Maidan, Anat Mirelman, Jeffrey M Hausdorff, Ivan Toni, Rick C Helmich
Impaired dual tasking, namely the inability to concurrently perform a cognitive and a motor task (e.g. 'stops walking while talking'), is a largely unexplained and frequent symptom of Parkinson's disease. Here we consider two circuit-level accounts of how striatal dopamine depletion might lead to impaired dual tasking in patients with Parkinson's disease. First, the loss of segregation between striatal territories induced by dopamine depletion may lead to dysfunctional overlaps between the motor and cognitive processes usually implemented in parallel cortico-striatal circuits...
March 17, 2017: Brain: a Journal of Neurology
https://www.readbyqxmd.com/read/28334877/iron-mediates-catalysis-of-nucleic-acid-processing-enzymes-support-for-fe-ii-as-a-cofactor-before-the-great-oxidation-event
#10
C Denise Okafor, Kathryn A Lanier, Anton S Petrov, Shreyas S Athavale, Jessica C Bowman, Nicholas V Hud, Loren Dean Williams
Life originated in an anoxic, Fe2+-rich environment. We hypothesize that on early Earth, Fe2+ was a ubiquitous cofactor for nucleic acids, with roles in RNA folding and catalysis as well as in processing of nucleic acids by protein enzymes. In this model, Mg2+ replaced Fe2+ as the primary cofactor for nucleic acids in parallel with known metal substitutions of metalloproteins, driven by the Great Oxidation Event. To test predictions of this model, we assay the ability of nucleic acid processing enzymes, including a DNA polymerase, an RNA polymerase and a DNA ligase, to use Fe2+ in place of Mg2+ as a cofactor during catalysis...
March 15, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334780/eif4a3-deficient-human-ipscs-and-mouse-models-demonstrate-neural-crest-defects-that-underlie-richieri-costa-pereira-syndrome
#11
Emily E Miller, Gerson S Kobayashi, Camila M Musso, Miranda Allen, Felipe A A Ishiy, Luiz C de Caires Junior, Ernesto S G Guimarães, Karina Griesi-Oliveira, Roseli M Zechi-Ceide, Antonio Richieri-Costa, Debora R Bertola, Maria Rita Passos-Bueno, Debra L Silver
Biallelic loss-of-function mutations in the RNA binding protein EIF4A3 cause Richieri-Costa-Pereira syndrome (RCPS), an autosomal recessive condition mainly characterized by craniofacial and limb malformations. However, the pathogenic cellular mechanisms responsible for this syndrome are entirely unknown. Here we used two complementary approaches, patient-derived induced pluripotent stem cells (iPSCs) and conditional Eif4a3 mouse models, to demonstrate that defective Neural Crest Cell (NCC) development explains RCPS craniofacial abnormalities...
March 2, 2017: Human Molecular Genetics
https://www.readbyqxmd.com/read/28334671/fast-tracking-the-molecular-weight-changes-of-humic-substances-in-coagulation-flocculation-processes-via-fluorescence-eem-parafac
#12
Bilal Aftab, Jin Hur
The removal of a commercial humic acid (HA) and changes in its chemical composition were examined for coagulation/flocculation (C/F) processes based on jar tests using two different coagulants at a wide range of pH. ZrCl4 showed a better performance in eliminating HA than Al2SO4 with the same removal rates at lower dosages. The highest removal rates were found at a neutral pH range (5.0-6.5). The HA was further decomposed into three different humic-like components (C1, C2, and C3) by excitation emission matrix coupled with parallel factor analysis (EEM-PARAFAC)...
March 20, 2017: Chemosphere
https://www.readbyqxmd.com/read/28334666/bio-refractory-dissolved-organic-matter-and-colorants-in-cassava-distillery-wastewater-characterization-coagulation-treatment-and-mechanisms
#13
Ming Zhang, Zhou Wang, Penghui Li, Hua Zhang, Li Xie
An important portion of organic matter and colorants still remain in the biologically treated distillery wastewater, leaving the dark brown and odorous downstream with the heavy loading of chemical oxygen demand and the potential of forming disinfection byproducts. However, those bio-recalcitrant colorants have not been clearly recognized. The current study investigated the features of the bio-refractory organic matter and colorants in a typical distillery effluent, cassava distillery wastewater; special attention was paid to their change and behaviors in the coagulation treatment following the bio-processes...
March 20, 2017: Chemosphere
https://www.readbyqxmd.com/read/28334403/cognitive-estimation-in-non-demented-parkinson-s-disease
#14
Federica Scarpina, Alessandro Mauro, Guido E D'Aniello, Giovani Albani, Gianluca Castelnuovo, Erika Ambiel, Sarah E MacPherson
Objective: The Cognitive Estimation Test (CET) is widely used in clinical and research settings to assess the ability to produce reasonable estimates to items that individuals would not know that the exact answer (e.g., "How fast do race horses run?"). We examined the performance of non-demented Parkinson's disease (PD) patients on the CET, because previous studies reported heterogeneous results about possible cognitive estimation impairments in PD. We also examined whether PD patients improve their performance if given the chance to reconsider their initial CET responses...
March 10, 2017: Archives of Clinical Neuropsychology: the Official Journal of the National Academy of Neuropsychologists
https://www.readbyqxmd.com/read/28334395/pore-guis-for-parallel-and-real-time-processing-of-minion-sequence-data
#15
Robert Stewart, Mick Watson
Motivation: Oxford Nanopore's MinION device has matured rapidly and is now capable of producing over one million reads and several gigabases of sequence data per run. The nature of the MinION output requires new tools that are easy to use by scientists with a range of computational skills and which enable quick and simple QC and data extraction from MinION runs. Results: We have developed two GUIs for the R package poRe that allow parallel and real-time processing of MinION datasets...
March 9, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28334329/metabolomics-of-pichia-pastoris-impact-of-buffering-conditions-on-the-kinetics-and-nature-of-metabolite-loss-during-quenching
#16
Matthias Mattanovich, Hannes Rußmayer, Theresa Scharl-Hirsch, Verena Puxbaum, Jonas Burgard, Diethard Mattanovich, Stephan Hann
Mass spectrometry based metabolomic profiling is a powerful strategy to quantify the concentrations of numerous primary metabolites in parallel. To avoid distortion of metabolite concentrations, quenching is applied to stop the cellular metabolism instantly. For yeasts, cold methanol quenching is accepted to be the most suitable method to stop metabolism, while keeping the cells intact for separation from the supernatant. During this treatment, metabolite loss may occur while the cells are suspended in the quenching solution...
March 15, 2017: FEMS Yeast Research
https://www.readbyqxmd.com/read/28334302/olfaction-warps-visual-time-perception
#17
Bin Zhou, Guo Feng, Wei Chen, Wen Zhou
Our perception of the world builds upon dynamic inputs from multiple senses with different temporal resolutions, and is threaded with the passing of subjective time. How time is extracted from multisensory inputs is scantly known. Utilizing psychophysical testing and electroencephalography, we show in healthy human adults that odors modulate object visibility around critical flicker-fusion frequency (CFF)-the limit at which chromatic flickers become perceived as a stable color-and effectively alter CFF in a congruency-based manner, despite that they afford no clear environmental temporal information...
March 17, 2017: Cerebral Cortex
https://www.readbyqxmd.com/read/28334281/blocking-c-fos-expression-reveals-the-role-of-auditory-cortex-plasticity-in-sound-frequency-discrimination-learning
#18
Livia de Hoz, Dorota Gierej, Victoria Lioudyno, Jacek Jaworski, Magda Blazejczyk, Hugo Cruces-Solís, Anna Beroun, Tomasz Lebitko, Tomasz Nikolaev, Ewelina Knapska, Israel Nelken, Leszek Kaczmarek
The behavioral changes that comprise operant learning are associated with plasticity in early sensory cortices as well as with modulation of gene expression, but the connection between the behavioral, electrophysiological, and molecular changes is only partially understood. We specifically manipulated c-Fos expression, a hallmark of learning-induced synaptic plasticity, in auditory cortex of adult mice using a novel approach based on RNA interference. Locally blocking c-Fos expression caused a specific behavioral deficit in a sound discrimination task, in parallel with decreased cortical experience-dependent plasticity, without affecting baseline excitability or basic auditory processing...
March 17, 2017: Cerebral Cortex
https://www.readbyqxmd.com/read/28333386/myofilaments-movers-and-rulers-of-the-sarcomere
#19
Brian Leei Lin, Taejeong Song, Sakthivel Sadayappan
Striated cardiac and skeletal muscles play very different roles in the body, but they are similar at the molecular level. In particular, contraction, regardless of the type of muscle, is a precise and complex process involving the integral protein myofilaments and their associated regulatory components. The smallest functional unit of muscle contraction is the sarcomere. Within the sarcomere can be found a sophisticated ensemble of proteins associated with the thick filaments (myosin, myosin binding protein-C, titin, and obscurin) and thin myofilaments (actin, troponin, tropomyosin, nebulin, and nebulette)...
March 16, 2017: Comprehensive Physiology
https://www.readbyqxmd.com/read/28333316/convergent-balancing-selection-on-the-mu-opioid-receptor-in-primates
#20
Carolyn G Sweeney, Juliette M Rando, Helen N Panas, Gregory M Miller, Donna M Platt, Eric J Vallender
The mu opioid receptor is involved in many natural processes including stress response, pleasure, and pain. Mutations in the gene also have been associated with opiate and alcohol addictions as well as with responsivity to medication targeting these disorders. Two common and mutually exclusive polymorphisms have been identified in humans, A118G (N40D), found commonly in non-African populations, and C17T (V6A), found almost exclusively in African populations. While A118G has been studied extensively for associations and in functional assays, C17T is much less well understood...
March 15, 2017: Molecular Biology and Evolution
keyword
keyword
94192
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"