16 results match your criteria performing pwm

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Compartmental diffusion and microstructural properties of human brain gray and white matter studied with double diffusion encoding magnetic resonance spectroscopy of metabolites and water.

Neuroimage 2021 Mar 21;234:117981. Epub 2021 Mar 21.

C.J. Gorter Center for High Field MRI, Department of Radiology, Leiden University Medical Center, Albinusdreef 2, 2333 ZA Leiden, The Netherlands.

Double diffusion encoding (DDE) of the water signal offers a unique ability to separate the effect of microscopic anisotropic diffusion in structural units of tissue from the overall macroscopic orientational distribution of cells. However, the specificity in detected microscopic anisotropy is limited as the signal is averaged over different cell types and across tissue compartments. Performing side-by-side water and metabolite DDE spectroscopic (DDES) experiments provides complementary measures from which intracellular and extracellular microscopic fractional anisotropies (μFA) and diffusivities can be estimated. Read More

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Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study.

Genome Biol 2020 05 11;21(1):114. Epub 2020 May 11.

School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015, Lausanne, Switzerland.

Background: Positional weight matrix (PWM) is a de facto standard model to describe transcription factor (TF) DNA binding specificities. PWMs inferred from in vivo or in vitro data are stored in many databases and used in a plethora of biological applications. This calls for comprehensive benchmarking of public PWM models with large experimental reference sets. Read More

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A Dual-Sensing Thermo-Chemical ISFET Array for DNA-Based Diagnostics.

IEEE Trans Biomed Circuits Syst 2020 06 3;14(3):477-489. Epub 2020 Mar 3.

This paper presents a 32 × 32 ISFET array with in-pixel dual-sensing and programmability targeted for on-chip DNA amplification detection. The pixel architecture provides thermal and chemical sensing by encoding temperature and ion activity in a single output PWM, modulating its frequency and its duty cycle respectively. Each pixel is composed of an ISFET-based differential linear OTA and a 2-stage sawtooth oscillator. Read More

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No Causal Effect of Telomere Length on Ischemic Stroke and Its Subtypes: A Mendelian Randomization Study.

Cells 2019 02 14;8(2). Epub 2019 Feb 14.

Beijing Key Laboratory of Clinical Epidemiology, School of Public Health, Capital Medical University, Beijing 100069, China.

Background: Epidemiological studies observing inconsistent associations of telomere length (TL) with ischemic stroke (IS) are susceptible to bias according to reverse causation and residual confounding. We aimed to assess the causal association between TL, IS, and the subtypes of IS, including large artery stroke (LAS), small vessel stroke (SVS), and cardioembolic stroke (CES) by performing a series of two-sample Mendelian randomization (MR) approaches.

Methods: Seven single nucleotide polymorphisms (SNPs) were involved as candidate instrumental variables (IVs), summarized from a genome-wide meta-analysis including 37,684 participants of European descent. Read More

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February 2019

Quantifying Discretization Errors in Electrophoretically-Guided Micro Additive Manufacturing.

Micromachines (Basel) 2018 Sep 7;9(9). Epub 2018 Sep 7.

Materials Science and Engineering Department, Northwestern University, Evanston, IL 60208, USA.

This paper presents process models for a new micro additive manufacturing process termed Electrophoretically-guided Micro Additive Manufacturing (EPμAM). In EPμAM, a planar microelectrode array generates the electric potential distributions which cause colloidal particles to agglomerate and deposit in desired regions. The discrete microelectrode array nature and the used pulse width modulation (PWM) technique for microelectrode actuation create unavoidable process errors-space and time discretization errors-that distort particle trajectories. Read More

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September 2018

Evaluating tools for transcription factor binding site prediction.

BMC Bioinformatics 2016 Nov 2;17(1):547. Epub 2016 Nov 2.

Institute of Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK.

Background: Binding of transcription factors to transcription factor binding sites (TFBSs) is key to the mediation of transcriptional regulation. Information on experimentally validated functional TFBSs is limited and consequently there is a need for accurate prediction of TFBSs for gene annotation and in applications such as evaluating the effects of single nucleotide variations in causing disease. TFBSs are generally recognized by scanning a position weight matrix (PWM) against DNA using one of a number of available computer programs. Read More

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November 2016

Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq).

BMC Genomics 2016 08 12;17(1):629. Epub 2016 Aug 12.

Institute for Molecular Biosciences, Goethe University, Biocentre, Max-von-Laue-Str. 9, D-60439, Frankfurt, Germany.

Background: Differential RNA-Seq (dRNA-Seq) is a recently developed method of performing primary transcriptome analyses that allows for the genome-wide mapping of transcriptional start sites (TSSs) and the identification of novel transcripts. Although the transcriptomes of diverse bacterial species have been characterized by dRNA-Seq, the transcriptome analysis of archaeal species is still rather limited. Therefore, we used dRNA-Seq to characterize the primary transcriptome of the model archaeon Haloferax volcanii. Read More

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MTPA control of mechanical sensorless IPMSM based on adaptive nonlinear control.

ISA Trans 2016 Mar 28;61:348-356. Epub 2016 Jan 28.

Department of Electrical Engineering, Islamic Azad University, Khomeinishahr Branch, Isfahan, Iran; Faculty of Electrical and Computer Engineering, Isfahan University of Technology, Isfahan, Iran. Electronic address:

In this paper, an adaptive nonlinear control scheme has been proposed for implementing maximum torque per ampere (MTPA) control strategy corresponding to interior permanent magnet synchronous motor (IPMSM) drive. This control scheme is developed in the rotor d-q axis reference frame using adaptive input-output state feedback linearization (AIOFL) method. The drive system control stability is supported by Lyapunov theory. Read More

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Past experience shapes ongoing neural patterns for language.

Nat Commun 2015 Dec 1;6:10073. Epub 2015 Dec 1.

Centre for Research on Brain, Language, and Music, Rabinovitch House, McGill University, 3640 Rue de la Montagne, Montreal, Québec, Canada H3G 2A8.

Early experiences may establish a foundation for later learning, however, influences of early language experience on later neural processing are unknown. We investigated whether maintenance of neural templates from early language experience influences subsequent language processing. Using fMRI, we scanned the following three groups performing a French phonological working memory (PWM) task: (1) monolingual French children; (2) children adopted from China before age 3 who discontinued Chinese and spoke only French; (3) Chinese-speaking children who learned French as a second language but maintained Chinese. Read More

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December 2015

Inferring intra-motif dependencies of DNA binding sites from ChIP-seq data.

BMC Bioinformatics 2015 Nov 9;16:375. Epub 2015 Nov 9.

Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany.

Background: Statistical modeling of transcription factor binding sites is one of the classical fields in bioinformatics. The position weight matrix (PWM) model, which assumes statistical independence among all nucleotides in a binding site, used to be the standard model for this task for more than three decades but its simple assumptions are increasingly put into question. Recent high-throughput sequencing methods have provided data sets of sufficient size and quality for studying the benefits of more complex models. Read More

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November 2015

Plasma beta-endorphin, cortisol and immune responses to acute exercise are altered by age and exercise training in horses.

Equine Vet J Suppl 2006 Aug(36):267-73

Equine Science Center, Department of Animal Sciences, Rutgers, The State University of New Jersey, New Brunswick, New Jersey 08901, USA.

Reasons For Performing Study: Ageing appears to affect immune and neuroendocirne function in horses and response to acute exercise. No studies have examined the combined effects of training and ageing on immune and neuroendocirne function in horses.

Hypothesis: To ascertain whether training and age would affect the plasma beta-endorphin (BE) and cortisol (C) as well as immune function responses to acute exercise in Standardbred mares. Read More

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Lymphocyte proliferation in response to acute heavy resistance exercise in women: influence of muscle strength and total work.

Eur J Appl Physiol 2001 Aug;85(3-4):367-73

Laboratory for Sports Medicine, Department of Kinesiology, Center for Sports Medicine, Pennsylvania State University, University Park, PA 16802, USA.

Little is understood about the immune responses to heavy resistance exercise. The purpose of this investigation was to determine the influence of physical strength and the ability to do more total work on lymphocyte proliferation after an acute bout of heavy resistance exercise. A group of 50 healthy but nonstrength trained women were recruited for the study and tested for their one repetition maximum (i. Read More

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Effects of photoperiod and melatonin on lymphocyte activities in male broiler chickens.

Poult Sci 2000 Jan;79(1):18-25

Department of Poultry Science, The Pennsylvania State University, University Park 16802-3501, USA.

Understanding the role of the pineal gland in regulating the immune response and the role of photoperiod in influencing pineal gland secretions are becoming increasingly important. The purposes of the present experiments were to investigate the effects of different photoperiod regimens on T- and B-lymphocyte activities in broiler chickens. Next, the influence of different photoperiod regimens on the responsiveness of lymphocytes to melatonin in vitro was examined. Read More

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January 2000

[Changes in cellular and humoral immunologic mechanisms in the postoperative period].

Rev Chir Oncol Radiol O R L Oftalmol Stomatol Chir 1989 Jan-Feb;38(1):69-80

The study attempted to evaluate the effects of anesthesia and of surgical interventions on certain humoral and cellular components of the mechanism of specific immunity. A total of 64 patients suffering with benign and malignant affections of the stomach and of the colon that had underwent resections under general anesthesia of the hypnoanalgesia type were followed at three stages of their evolution--before surgery, at 24 hours after surgery, and 7 days after surgery. Blood samples were obtained for performing the following tests: count of lymphocytes, blastic transformations test, stimulated control (with PHA and PWM), rosetting test, total number of eosinophils, high affinity eosinophils, and other tests. Read More

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September 1989

Allogeneic fibroblasts and endothelial cells support mitogen but not antigen responses of tetanus-responsive T-cell lines.

Clin Immunol Immunopathol 1987 May;43(2):204-10

Recent studies suggest a role for endothelial cells (EC) and fibroblasts (FB) in performing certain accessory functions of monocytes in immune responses. We examined the ability of allogeneic adherent cells (AC), umbilical vein EC, and foreskin FB to support antigen and mitogen responses of tetanus toxoid-responsive human T-cell lines (TCTet). Syngeneic AC supported antigen and mitogen (phytohemagglutinin and pokeweed mitogen, PHA and PWM) responses of TCTet. Read More

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Isolation and characterization of an outer membrane protein of Salmonella paratyphi B: a mitogen and polyclonal activator of human B lymphocytes.

Immunology 1984 May;52(1):67-78

Salmonella paratyphi B (S. paratyphi B) has been previously characterized as a human T-independent polyclonal B cell activator. To define further the nature of the bacterial structure responsible for these properties, we studied the effects of autoclaving and enzyme treatment of S. Read More

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