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https://www.readbyqxmd.com/read/27899627/improvements-to-patric-the-all-bacterial-bioinformatics-database-and-analysis-resource-center
#1
Alice R Wattam, James J Davis, Rida Assaf, Sébastien Boisvert, Thomas Brettin, Christopher Bun, Neal Conrad, Emily M Dietrich, Terry Disz, Joseph L Gabbard, Svetlana Gerdes, Christopher S Henry, Ronald W Kenyon, Dustin Machi, Chunhong Mao, Eric K Nordberg, Gary J Olsen, Daniel E Murphy-Olson, Robert Olson, Ross Overbeek, Bruce Parrello, Gordon D Pusch, Maulik Shukla, Veronika Vonstein, Andrew Warren, Fangfang Xia, Hyunseung Yoo, Rick L Stevens
The Pathosystems Resource Integration Center (PATRIC) is the bacterial Bioinformatics Resource Center (https://www.patricbrc.org). Recent changes to PATRIC include a redesign of the web interface and some new services that provide users with a platform that takes them from raw reads to an integrated analysis experience. The redesigned interface allows researchers direct access to tools and data, and the emphasis has changed to user-created genome-groups, with detailed summaries and views of the data that researchers have selected...
November 29, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27884859/isolated-gnrh-deficiency-genotypic-and-phenotypic-characteristics-of-the-genetically-heterogeneous-greek-population
#2
Maria I Stamou, Petros Varnavas, Machi Kentrou, Fotini Adamidou, Antonis Voutetakis, Jenny Jing, Lacey Plummer, Vasiliki Koika, Neoklis A Georgopoulos
OBJECTIVE: Isolated GnRH Deficiency (IGD) is a rare heritable disorder characterized by phenotypic and genetic heterogeneity. The genetic complexity of IGD has been surfaced by analyzing clinically complex cases, structural genetic variation as well as endogamous familial cases and isolated populations, revealing an enrichment for particular genes/ pathways that reflects the homogeneous genetic background of such populations. DESIGN AND METHODS: We analyzed a cohort of 81 Greek IGD patients by performing detailed phenotyping, followed by Sanger Sequencing of 14 causative IGD genes...
November 24, 2016: European Journal of Endocrinology
https://www.readbyqxmd.com/read/27876289/development-of-an-efficient-anaerobic-co-digestion-process-for-garbage-excreta-and-septic-tank-sludge-to-create-a-resource-recycling-oriented-society
#3
Zhao-Yong Sun, Kai Liu, Li Tan, Yue-Qin Tang, Kenji Kida
In order to develop a resource recycling-oriented society, an efficient anaerobic co-digestion process for garbage, excreta and septic tank sludge was studied based on the quantity of each biomass waste type discharged in Ooki machi, Japan. The anaerobic digestion characteristics of garbage, excreta and 5-fold condensed septic tank sludge (hereafter called condensed sludge) were determined separately. In single-stage mesophilic digestion, the excreta with lower C/N ratios yielded lower biogas volumes and accumulated higher volumes of volatile fatty acid (VFA)...
November 18, 2016: Waste Management
https://www.readbyqxmd.com/read/27871472/an-immunohistochemical-study-of-placental-syncytiotrophoblasts-in-neonatal-hemochromatosis
#4
Aiko Shimono, Yuko Imoto, Haruhiko Sakamoto, Yoichi Chiba, Koichi Matsumoto, Machi Kawauchi, Takashi Kusaka, Hirokazu Tanaka, Toshiyuki Hata, Yoshio Kushida, Masaki Ueno
INTRODUCTION: Neonatal hemochromatosis (NH) is a rare neonatal disorder that results in liver cirrhosis with hemosiderin deposition in the liver and other organs, similarly to hereditary hemochromatosis. Excess iron is transferred from the mother to fetus through the placenta in NH. We examined the expression of iron metabolism-related substances in placental syncytiotrophoblasts (STB) by immunostaining to clarify how the transfer of iron through STB increases in NH. METHODS: Immunostaining was performed using formalin-fixed, paraffin-embedded sections of placentae from three NH cases, four gestational age-matched controls, and, depending on the antibody examined, five to seven full-term controls...
December 2016: Placenta
https://www.readbyqxmd.com/read/27849921/279-effectiveness-of-saturation-of-brain-tissue-as-a-prognosis-predictive-value-in-cpa
#5
Jumpei Tsukuda, Miyuki Kurisu, Takeshi Kawaguchi, Yuka Takamatsu, Machi Yanai, Kenichiro Morisawa, Shigeki Fujitani, Yasuhiko Taira
No abstract text is available yet for this article.
December 2016: Critical Care Medicine
https://www.readbyqxmd.com/read/27818355/glucose-transporter-8-immunoreactivity-in-astrocytic-and-microglial-cells-in-subependymal-areas-of-human-brains
#6
Masato Mashima, Yoichi Chiba, Ryuta Murakami, Naoya Uemura, Koichi Matsumoto, Machi Kawauchi, Kenji Kanenishi, Toshiyuki Hata, Masaki Ueno
Glucose transporter 8 (GLUT8), a glucose/fructose transporter, has been shown to be expressed in neuronal cells in several brain areas. A recent immunohistochemical study has shown the presence of GLUT8 in the cytoplasm of epithelial cells of the choroid plexus and ependymal cells. In this study, localization of GLUT8 in glial cells was investigated using immunohistochemical methods. Immunoreactivity for GLUT8 was observed in cells showing astrocytic or microglial structural features located around the lateral ventricles...
November 3, 2016: Neuroscience Letters
https://www.readbyqxmd.com/read/27743408/pharmacokinetics-of-ivermectin-applied-topically-by-whole-body-bathing-method-in-healthy-volunteers
#7
Atsushi Miyajima, Takashi Hirota, Mari Tashiro, Wataru Noguchi, Yayoi Kawano, Takehisa Hanawa, Akira Kigure, Taichi Anata, Yosuke Yamamoto, Nae Yuasa, Machi Koshino, Yumi Shiraishi, Kaoru Yuzawa, Keita Akagi, Takashi Yoshimasu, Kuniko Makigami, Masayo Komoda
As a novel administration method of ivermectin (IVM) for scabies treatment, we proposed a "whole-body bathing method (WBBM)". In this method, the patients would bathe themselves in a bathing fluid containing IVM at an effective concentration. Previously, we demonstrated that WBBM could deliver IVM to the skin but not to the plasma in rats. In the present study, to assess the clinical validity of the method an arm bathing examination (first trial) and a whole-body bathing examination (second trial) were conducted in healthy volunteers...
October 15, 2016: Journal of Dermatology
https://www.readbyqxmd.com/read/27705852/local-transverse-slice-based-level-set-method-for-segmentation-of-3d-high-frequency-ultrasonic-backscatter-from-dissected-human-lymph-nodes
#8
Thanh M Bui, Alain Coron, Jonathan Mamou, Emi Saegusa-Beecroft, Tadashi Yamaguchi, Eugene Yanagihara, Junji Machi, S Lori Bridal, Ernest J Feleppa
OBJECTIVE: To detect metastases in freshly excised human lymph nodes (LNs) using 3-dimensional (3D), high-frequency, quantitative ultrasound (QUS) methods, the LN parenchyma (LNP) must be segmented to preclude QUS analysis of data in regions outside the LNP and to compensate ultrasound attenuation effects due to overlying layers of LNP and residual perinodal fat (PNF). METHODS: After restoring saturated radio-frequency signals from PNF using an approach based on smoothing-cubic splines, the three regions, i...
September 28, 2016: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/27623855/toxic-evaluations-of-sediments-in-tokyo-bay-japan-using-japanese-medaka-embryos
#9
Seiichi Uno, Emiko Kokushi, Machi Kawano, Anne E McElroy, Jiro Koyama
Toxic risks of sediments collected from seven sites in Tokyo Bay were evaluated using Japanese medaka embryos. Those sediments with slight pore water were placed in grass petri dishes without overlying water. The most remarkable effect in the field sediment was to cause hatching delay in embryos, and the longest time until hatching took was 12.5 ± 1.6 days post-fertilization (dpf), although that in control group was 10.1 ± 0.7 dpf. A significant delay in hatching was observed at four sites. Because total carbon concentrations were relatively high in sediments at three of these four sites, several chemicals were expected to be residues in these sites and could cause their delay...
September 13, 2016: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/27515419/on-the-top-of-arb-n-l-type%C3%A2-ca-channel-blocker-leads-to-less-elevation-of-aldosterone
#10
Tadashi Konoshita, Saori Kaeriyama, Machi Urabe, Takahiro Nakaya, Mika Yamada, Mai Ichikawa, Katsushi Yamamoto, Satsuki Sato, Michiko Imagawa, Miki Fujii, Yasukazu Makino, Yasuo Zenimaru, Shigeyuki Wakahara, Jinya Suzuki, Tamotsu Ishizuka, Hiroyuki Nakamura
The activation of the renin-angiotensin system (RAS) is one of the unfavourable characteristics of calcium channel blocker (CCB). N type calcium channel is thought to be involved in renin gene transcription and adrenal aldosterone release. Accordingly, N/L type CCB has a possibility of less elevation of plasma aldosterone concentrations (PAC) among CCBs. In a monotherapy study, we had already demonstrated that N/L type CCB leads to less activation of the RAS compared with L type CCB. The objective of this study is to substantiate the hypothesis that at the condition of additive administration on the top of an angiotensin receptor blocker (ARB), still N/L type CCB leads to less elevation of PAC compared with L type one...
October 2016: Bioscience Reports
https://www.readbyqxmd.com/read/27491774/prediction-of-drug-interaction-between-oral-adsorbent-ast-120-and-concomitant-drugs-based-on-the-in-vitro-dissolution-and-in-vivo-absorption-behavior-of-the-drugs
#11
Yohei Koya, Shinya Uchida, Yoshiki Machi, Yuko Shobu, Noriyuki Namiki, Tsutomu Kotegawa
PURPOSE: AST-120 is used to decrease the abundance of serum uremic toxins in treatment of chronic kidney disease; however, it could also adsorb concomitantly administered drugs. This study aimed to develop a prediction method for drug interaction between AST-120 and concomitantly administered drugs based on in vitro dissolution and in vivo absorption behavior. METHODS: Sixty-eight drugs were selected for the analysis. For each drug, theoretical dissolution (R d) and absorption (R a) rates at estimated dosing intervals (1, 30, 60, 90, 120, and 240 min) were calculated using the Noyes-Whitney formula and compartment analysis, respectively...
November 2016: European Journal of Clinical Pharmacology
https://www.readbyqxmd.com/read/27477432/helicobacter-cinaedii-in-urine
#12
Toshihiko Machi
No abstract text is available yet for this article.
2016: Internal Medicine
https://www.readbyqxmd.com/read/27451321/menopause-specific-health-literacy-in-japanese-women
#13
Machi Suka, Asako Taniuchi, Suguru Igarashi, Hiroyuki Yanagisawa, Bunpei Ishizuka
OBJECTIVES: This study proposed a method for assessing menopause-specific health literacy (knowledge and beliefs about menopausal symptoms which aid their recognition, assessment, and management) using a vignette methodology. STUDY DESIGN: A cross-sectional web-based survey was conducted in September 2015 among Japanese women aged 30-59 years. Of 1236 women surveyed, 1196 eligible participants who were not under treatment for menopausal symptoms were included. MAIN OUTCOME MEASURES: Participants were presented with a vignette describing a woman with menopausal symptoms and were then asked a series of questions to assess their recognition of menopausal symptoms, attitude, subjective norm, perceived behavior control, availability, and intention to seek medical care if they themselves had the problems described in the vignette...
September 2016: Maturitas
https://www.readbyqxmd.com/read/27354546/micro-adhesion-rings-surrounding-tcr-microclusters-are-essential-for-t-cell-activation
#14
Akiko Hashimoto-Tane, Machie Sakuma, Hiroshi Ike, Tadashi Yokosuka, Yayoi Kimura, Osamu Ohara, Takashi Saito
The immunological synapse (IS) formed at the interface between T cells and antigen-presenting cells represents a hallmark of initiation of acquired immunity. T cell activation is initiated at T cell receptor (TCR) microclusters (MCs), in which TCRs and signaling molecules assemble at the interface before IS formation. We found that each TCR-MC was transiently bordered by a ring structure made of integrin and focal adhesion molecules in the early phase of activation, which is similar in structure to the IS in microscale...
July 25, 2016: Journal of Experimental Medicine
https://www.readbyqxmd.com/read/27333535/albumin-microvascular-leakage-in-brains-with-diabetes-mellitus
#15
Ryuji Fujihara, Yoichi Chiba, Toshitaka Nakagawa, Nozomu Nishi, Ryuta Murakami, Koichi Matsumoto, Machi Kawauchi, Tetsuji Yamamoto, Masaki Ueno
Their aim was to examine whether microvascular leakage of endogenous albumin, a representative marker for blood-brain barrier (BBB) damage, was induced in the periventricular area of diabetic db/db mice because periventricular white matter hyperintensity formation in magnetic resonance images was accelerating in elderly patients with diabetes mellitus. Using light and electron microscopes, and semi-quantitative analysis techniques, immunoreactivity of endogenous albumin, indicating vascular permeability, was examined in the periventricular area and spinal cord of db/db mice and db/+m control mice...
September 2016: Microscopy Research and Technique
https://www.readbyqxmd.com/read/27286043/temporal-changes-in-post-infectious-glomerulonephritis-in-japan-1976-2009
#16
Joichi Usui, Takashi Tawara-Iida, Kenji Takada, Itaru Ebihara, Atsushi Ueda, Satoshi Iwabuchi, Takashi Ishizu, Tadashi Iitsuka, Katsumi Takemura, Tetsuya Kawamura, Shuzo Kaneko, Kentaro Sakai, Hirayasu Kai, Tomoka Gomibuchi, Michio Nagata, Masaki Kobayashi, Akio Koyama, Machi Suka, Jai Radhakrishnan, Kunihiro Yamagata
BACKGROUND: The incidence of post-infectious glomerulonephritis (PIGN) in developed countries has decreased over the last 50 years. Here we identified the trends of the incidence of PIGN in Japan during the past four decades. METHODS: We explored the frequency, clinicopathological findings, and prognosis of PIGN based on 6,369 cases from the Renal Biopsy Database of our institute in the Kanto region of Japan, diagnosed histologically from 1976 to 2009. RESULTS: The numbers of PIGN cases were 131 (2...
2016: PloS One
https://www.readbyqxmd.com/read/27284661/production-of-highly-polarized-positrons-using-polarized-electrons-at-mev-energies
#17
D Abbott, P Adderley, A Adeyemi, P Aguilera, M Ali, H Areti, M Baylac, J Benesch, G Bosson, B Cade, A Camsonne, L S Cardman, J Clark, P Cole, S Covert, C Cuevas, O Dadoun, D Dale, H Dong, J Dumas, E Fanchini, T Forest, E Forman, A Freyberger, E Froidefond, S Golge, J Grames, P Guèye, J Hansknecht, P Harrell, J Hoskins, C Hyde, B Josey, R Kazimi, Y Kim, D Machie, K Mahoney, R Mammei, M Marton, J McCarter, M McCaughan, M McHugh, D McNulty, K E Mesick, T Michaelides, R Michaels, B Moffit, D Moser, C Muñoz Camacho, J-F Muraz, A Opper, M Poelker, J-S Réal, L Richardson, S Setiniyaz, M Stutzman, R Suleiman, C Tennant, C Tsai, D Turner, M Ungaro, A Variola, E Voutier, Y Wang, Y Zhang
The Polarized Electrons for Polarized Positrons experiment at the injector of the Continuous Electron Beam Accelerator Facility has demonstrated for the first time the efficient transfer of polarization from electrons to positrons produced by the polarized bremsstrahlung radiation induced by a polarized electron beam in a high-Z target. Positron polarization up to 82% have been measured for an initial electron beam momentum of 8.19  MeV/c, limited only by the electron beam polarization. This technique extends polarized positron capabilities from GeV to MeV electron beams, and opens access to polarized positron beam physics to a wide community...
May 27, 2016: Physical Review Letters
https://www.readbyqxmd.com/read/27267287/an-uncharted-constellation-tafro-syndrome
#18
Akira Tadokoro, Nobuhiro Kanaji, Taiga Hara, Koichi Matsumoto, Tomoya Ishii, Takehiro Takagi, Naoki Watanabe, Nobuyuki Kita, Machi Kawauchi, Masaki Ueno, Norimitsu Kadowaki, Shuji Bandoh
No abstract text is available yet for this article.
September 2016: American Journal of Medicine
https://www.readbyqxmd.com/read/27234825/effects-of-oxygenated-polycyclic-aromatic-hydrocarbons-on-the-early-life-stages-of-japanese-medaka
#19
Machi Kawano, Seiichi Uno, Jiro Koyama, Emiko Kokushi, Anne McElroy
Oxygenated polycyclic aromatic hydrocarbons (oxyPAHs) are directly discharged into the atmosphere with exhaust gas from diesel engine automobiles and industry and are also generated by photo-oxidation and/or microbial metabolism of parent polycyclic aromatic hydrocarbons (PAHs). They are widely distributed in environment, especially around urban areas. We evaluated the effects of exposure to oxyPAHs as acenaphthenequinone (ANQ), 7,12-benz(a)anthracenequinone (BAQ), 1,4-naphthoquinone (NAQ), and 9,10-phenanethrenequinone (PHQ) in Japanese medaka (Oryzias latipes) embryos...
May 27, 2016: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/27160096/immunoreactivity-of-glucose-transporter-8-is-localized-in-the-epithelial-cells-of-the-choroid-plexus-and-in-ependymal-cells
#20
Ryuta Murakami, Yoichi Chiba, Kazuhito Tsuboi, Koichi Matsumoto, Machi Kawauchi, Ryuji Fujihara, Masato Mashima, Kenji Kanenishi, Tetsuji Yamamoto, Masaki Ueno
High fructose intake is known to be associated with increased plasma triglyceride concentration, impaired glucose tolerance, insulin resistance, and high blood pressure. In addition, excess fructose intake is also thought to be a risk factor for dementia. Previous immunohistochemical studies have shown the presence of glucose transporter 5 (GLUT5), a major transporter of fructose, in the epithelial cells of the choroid plexus and ependymal cells in the brains of humans, rats, and mice, while GLUT2, a minor transporter of fructose, was localized in the ependymal cells of rat brain...
August 2016: Histochemistry and Cell Biology
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