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William Hsiao

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https://www.readbyqxmd.com/read/29026651/snvphyl-a-single-nucleotide-variant-phylogenomics-pipeline-for-microbial-genomic-epidemiology
#1
Aaron Petkau, Philip Mabon, Cameron Sieffert, Natalie C Knox, Jennifer Cabral, Mariam Iskander, Mark Iskander, Kelly Weedmark, Rahat Zaheer, Lee S Katz, Celine Nadon, Aleisha Reimer, Eduardo Taboada, Robert G Beiko, William Hsiao, Fiona Brinkman, Morag Graham, Gary Van Domselaar
The recent widespread application of whole-genome sequencing (WGS) for microbial disease investigations has spurred the development of new bioinformatics tools, including a notable proliferation of phylogenomics pipelines designed for infectious disease surveillance and outbreak investigation. Transitioning the use of WGS data out of the research laboratory and into the front lines of surveillance and outbreak response requires user-friendly, reproducible and scalable pipelines that have been well validated...
June 30, 2017: Microbial Genomics
https://www.readbyqxmd.com/read/28981741/comparative-risks-for-cancer-associated-with-use-of-calcitonin-bisphosphonates-or-selective-estrogen-receptor-modulators-among-osteoporosis-patients-a-population-based-cohort-study
#2
Fei-Yuan Hsiao, William Wei-Yuan Hsu
Background: This population-based cohort study was to compare the risks of incident cancer in osteoporosis patients who used bisphosphonates, calcitonin or selective estrogen receptor modulators (SERMs). Methods: We identified 9995 patients who were diagnosed with osteoporosis and prescribed osteoporosis drugs (bisphosphonate (n = 4675), calcitonin (n = 3993) and SERMs (n = 1327)) between 1 January 2000 and 31 December 2006 in Taiwan's National Health Insurance Research Database...
October 1, 2017: Japanese Journal of Clinical Oncology
https://www.readbyqxmd.com/read/28936029/silicon-nanoporous-membranes-as-a-rigorous-platform-for-validation-of-biomolecular-transport-models
#3
Benjamin J Feinberg, Jeff C Hsiao, Jaehyun Park, Andrew L Zydney, William H Fissell, Shuvo Roy
Microelectromechanical systems (MEMS), a technology that resulted from significant innovation in semiconductor fabrication, have recently been applied to the development of silicon nanopore membranes (SNM). In contrast to membranes fabricated from polymeric materials, SNM exhibit slit-shaped pores, monodisperse pore size, constant surface porosity, zero pore overlap, and sub-micron thickness. This development in membrane fabrication is applied herein for the validation of the XDLVO (extended Derjaguin, Landau, Verwey, and Overbeek) theory of membrane transport within the context of hemofiltration...
August 15, 2017: Journal of Membrane Science
https://www.readbyqxmd.com/read/28869811/hidden-markov-model-analysis-reveals-the-advantage-of-analytic-eye-movement-patterns-in-face-recognition-across-cultures
#4
Tim Chuk, Kate Crookes, William G Hayward, Antoni B Chan, Janet H Hsiao
It remains controversial whether culture modulates eye movement behavior in face recognition. Inconsistent results have been reported regarding whether cultural differences in eye movement patterns exist, whether these differences affect recognition performance, and whether participants use similar eye movement patterns when viewing faces from different ethnicities. These inconsistencies may be due to substantial individual differences in eye movement patterns within a cultural group. Here we addressed this issue by conducting individual-level eye movement data analysis using hidden Markov models (HMMs)...
December 2017: Cognition
https://www.readbyqxmd.com/read/28866367/the-fop-connection-registry-design-of-an-international-patient-sponsored-registry-for-fibrodysplasia-ossificans-progressiva
#5
Neal Mantick, Eric Bachman, Genevieve Baujat, Matt Brown, Oliver Collins, Carmen De Cunto, Patricia Delai, Marelise Eekhoff, Roger Zum Felde, Donna Roy Grogan, Nobuhiko Haga, Edward Hsiao, Sharon Kantanie, Frederick Kaplan, Richard Keen, Jelena Milosevic, Rolf Morhart, Robert Pignolo, Xiaobing Qian, Maja di Rocco, Christiaan Scott, Adam Sherman, Marin Wallace, Nicky Williams, Keqin Zhang, Betsy Bogard
The Fibrodysplasia Ossificans Progressiva (FOP) Connection Registry is an international, voluntary, observational study that directly captures demographic and disease information initially from patients with FOP (the patient portal) and in the near future from treating physicians (the physician portal) via a secure web-based tool. It was launched by the International FOP Association (IFOPA) with a guiding vision to develop and manage one unified, global, and coordinated Registry allowing the assembly of the most comprehensive data on FOP...
August 30, 2017: Bone
https://www.readbyqxmd.com/read/28802985/clinical-analysis-of-48-h-emergency-department-visit-post-outpatient-extracorporeal-shock-wave-lithotripsy-for-urolithiasis
#6
Chin-Heng Lu, Junne-Yih Kuo, Tzu-Ping Lin, Yi-Hsiu Huang, Hsiao-Jen Chung, William J S Huang, Howard H H Wu, Yen-Hwa Chang, Alex T L Lin, Kuang-Kuo Chen
BACKGROUND: Patients suffering from renal or ureteral stones can undergo significant discomfort, even when timely diagnosed and treated. The aim of this study was to assess the risk factors and safety of outpatient Extracorporeal Shock Wave Lithotripsy (ESWL) in the management of patients with renal or ureteral stones. METHODS: In this study, our cohort consisted of 844 outpatients who underwent outpatient ESWL treated between February 2012 and November 2014 at Taipei Veterans General Hospital...
August 9, 2017: Journal of the Chinese Medical Association: JCMA
https://www.readbyqxmd.com/read/28763467/effects-of-tnf-%C3%AE-on-penile-structure-alteration-in-rats-with-hyperprolactinemia
#7
Zhong-Lin Wang, Ling-Yu Yang, Hong-Huan Chen, Hsiao-Hsin Lin, Yi-Ting Tsai, William J Huang
This study aimed to investigate the effects of anti-tumor necrosis factor (TNF)-α antibody (Ab) on alteration of penile structure in the hyperprolactinemia (hyperPRL) rat model. HyperPRL was induced in 8-week-old male Sprague-Dawley rats by allografting anterior pituitary (AP) glands under the renal capsule (+AP rats). Rats implanted with cerebral cortex (CX) were used as sham control (+CX rats). At 6 weeks post implantation, rats received either a single intra-testicular dose of TNF-α Ab (12.5 μg/kg) or testosterone replacement (2 doses of testosterone enanthate [TE], 3 mg/kg), and they were sacrificed 1 week later...
2017: PloS One
https://www.readbyqxmd.com/read/28753430/defining-a-cancer-dependency-map
#8
Aviad Tsherniak, Francisca Vazquez, Phil G Montgomery, Barbara A Weir, Gregory Kryukov, Glenn S Cowley, Stanley Gill, William F Harrington, Sasha Pantel, John M Krill-Burger, Robin M Meyers, Levi Ali, Amy Goodale, Yenarae Lee, Guozhi Jiang, Jessica Hsiao, William F J Gerath, Sara Howell, Erin Merkel, Mahmoud Ghandi, Levi A Garraway, David E Root, Todd R Golub, Jesse S Boehm, William C Hahn
Most human epithelial tumors harbor numerous alterations, making it difficult to predict which genes are required for tumor survival. To systematically identify cancer dependencies, we analyzed 501 genome-scale loss-of-function screens performed in diverse human cancer cell lines. We developed DEMETER, an analytical framework that segregates on- from off-target effects of RNAi. 769 genes were differentially required in subsets of these cell lines at a threshold of six SDs from the mean. We found predictive models for 426 dependencies (55%) by nonlinear regression modeling considering 66,646 molecular features...
July 27, 2017: Cell
https://www.readbyqxmd.com/read/28694792/context-is-everything-harmonization-of-critical-food-microbiology-descriptors-and-metadata-for-improved-food-safety-and-surveillance
#9
Emma Griffiths, Damion Dooley, Morag Graham, Gary Van Domselaar, Fiona S L Brinkman, William W L Hsiao
Globalization of food networks increases opportunities for the spread of foodborne pathogens beyond borders and jurisdictions. High resolution whole-genome sequencing (WGS) subtyping of pathogens promises to vastly improve our ability to track and control foodborne disease, but to do so it must be combined with epidemiological, clinical, laboratory and other health care data (called "contextual data") to be meaningfully interpreted for regulatory and health interventions, outbreak investigation, and risk assessment...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28531288/an-evaluation-of-systemic-reforms-of-public-hospitals-the-sanming-model-in-china
#10
Hongqiao Fu, Ling Li, Mingqiang Li, Chunyu Yang, William Hsiao
Low- and middle-income countries (LMICs) have been searching for effective strategies to reform their inefficient and wasteful public hospitals. Recently, China developed a model of systemic reforms called the Sanming model to address the inefficiency and waste at public hospitals. In this article, we explain and evaluate how the Sanming model reformed its 22 public hospitals in 2013 by simultaneously restructuring the hospital governance structure, altering the payment system to hospitals, and realigning physicians' incentives...
October 1, 2017: Health Policy and Planning
https://www.readbyqxmd.com/read/28529023/clinical-efficacy-of-transrectal-ultrasound-guided-prostate-biopsy-in-men-younger-than-50-years-old-with-an-elevated-prostate-specific-antigen-concentration-4-0%C3%A2-ng-ml
#11
Chin-Heng Lu, Tzu-Ping Lin, She Huei Shen, Yi-Hsiu Huang, Hsiao-Jen Chung, Junne-Yih Kuo, William J S Huang, Howard H H Wu, Yen-Hwa Chang, Alex T L Lin, Kuang-Kuo Chen
BACKGROUND: Prostate cancer (PCa) is not commonly found in men younger than 50 years of age. However, serum prostate-specific antigen (PSA) concentration has been examined more frequently at a younger age in Asia partially due to an increased awareness of prostate cancer. The purpose of our study was to investigate the efficacy and complication of PSA-triggered transrectal ultrasonography-guided prostate (TRUSP) biopsies. We retrospectively reviewed TRUSP biopsies in young men with elevated PSA concentration in Taipei Veterans General Hospital...
May 18, 2017: Journal of the Chinese Medical Association: JCMA
https://www.readbyqxmd.com/read/28375615/specific-connectivity-and-unique-molecular-identity-of-met-receptor-tyrosine-kinase-expressing-serotonergic-neurons-in-the-caudal-dorsal-raphe-nuclei
#12
Ryan J Kast, Hsiao-Huei Wu, Piper Williams, Patricia Gaspar, Pat Levitt
Molecular characterization of neurons across brain regions has revealed new taxonomies for understanding functional diversity even among classically defined neuronal populations. Neuronal diversity has become evident within the brain serotonin (5-HT) system, which is far more complex than previously appreciated. However, until now it has been difficult to define subpopulations of 5-HT neurons based on molecular phenotypes. We demonstrate that the MET receptor tyrosine kinase (MET) is specifically expressed in a subset of 5-HT neurons within the caudal part of the dorsal raphe nuclei (DRC) that is encompassed by the classic B6 serotonin cell group...
May 1, 2017: ACS Chemical Neuroscience
https://www.readbyqxmd.com/read/28253632/nickel-catalyzed-synthesis-of-quinazolinediones
#13
Gregory L Beutner, Yi Hsiao, Thomas Razler, Eric M Simmons, William Wertjes
A nickel(0)-catalyzed method for the synthesis of quinazolinediones from isatoic anhydrides and isocyanates is described. High-throughput ligand screening revealed that XANTPHOS was the optimal ligand for this transformation. Subsequent optimization studies, supported by kinetic analysis, significantly expanded the reaction scope. The reaction exhibits a case of substrate inhibition kinetics with respect to the isocyanate. Preliminary results on an asymmetric synthesis of atropisomeric quinazolinediones are reported...
March 3, 2017: Organic Letters
https://www.readbyqxmd.com/read/28240221/mammalian-trappiii-complex-positively-modulates-the-recruitment-of-sec13-31-onto-copii-vesicles
#14
Shan Zhao, Chun Man Li, Xiao Min Luo, Gavin Ka Yu Siu, Wen Jia Gan, Lin Zhang, William K K Wu, Hsiao Chang Chan, Sidney Yu
The Transport protein particle (TRAPP) complex is a tethering factor for COPII vesicle. Of three forms of TRAPP (TRAPPI, II and III) complexes identified so far, TRAPPIII has been largely considered to play a role in autophagy. While depletion of TRAPPIII specific subunits caused defects in the early secretory pathway and TRAPPIII might interact with components of the COPII vesicle coat, its exact role remains to be determined. In this study, we studied the function of TRAPPIII in early secretory pathway using a TRAPPIII-specific subunit, TRAPPC12, as starting point...
February 27, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28159067/infection-control-in-the-new-age-of-genomic-epidemiology
#15
REVIEW
Patrick Tang, Matthew A Croxen, Mohammad R Hasan, William W L Hsiao, Linda M Hoang
With the growing importance of infectious diseases in health care and communicable disease outbreaks garnering increasing attention, new technologies are playing a greater role in helping us prevent health care-associated infections and provide optimal public health. The microbiology laboratory has always played a large role in infection control by providing tools to identify, characterize, and track pathogens. Recently, advances in DNA sequencing technology have ushered in a new era of genomic epidemiology, where traditional molecular diagnostics and genotyping methods are being enhanced and even replaced by genomics-based methods to aid epidemiologic investigations of communicable diseases...
February 1, 2017: American Journal of Infection Control
https://www.readbyqxmd.com/read/28110250/detection-and-discrimination-of-maintenance-and-de-novo-cpg-methylation-events-using-methylbreak
#16
William Hsu, Augustus T Mercado, George Hsiao, Jui-Ming Yeh, Chung-Yung Chen
Understanding the principles governing the establishment and maintenance activities of DNA methyltransferases (DNMTs) can help in the development of predictive biomarkers associated with genetic disorders and diseases. A detection system was developed that distinguishes and quantifies methylation events using methylation-sensitive endonucleases and molecular beacon technology. MethylBreak (MB) is a 22-mer oligonucleotide with one hemimethylated and two unmethylated CpG sites, which are also recognition sites for Sau96I and SacII, and is attached to a fluorophore and a quencher...
May 15, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28017372/a-syndromic-neurodevelopmental-disorder-caused-by-de-novo-variants-in-ebf3
#17
Hsiao-Tuan Chao, Mariska Davids, Elizabeth Burke, John G Pappas, Jill A Rosenfeld, Alexandra J McCarty, Taylor Davis, Lynne Wolfe, Camilo Toro, Cynthia Tifft, Fan Xia, Nicholas Stong, Travis K Johnson, Coral G Warr, Shinya Yamamoto, David R Adams, Thomas C Markello, William A Gahl, Hugo J Bellen, Michael F Wangler, May Christine V Malicdan
Early B cell factor 3 (EBF3) is a member of the highly evolutionarily conserved Collier/Olf/EBF (COE) family of transcription factors. Prior studies on invertebrate and vertebrate animals have shown that EBF3 homologs are essential for survival and that loss-of-function mutations are associated with a range of nervous system developmental defects, including perturbation of neuronal development and migration. Interestingly, aristaless-related homeobox (ARX), a homeobox-containing transcription factor critical for the regulation of nervous system development, transcriptionally represses EBF3 expression...
January 5, 2017: American Journal of Human Genetics
https://www.readbyqxmd.com/read/27914715/prostate-cancer-in-young-adults-seventeen-year-clinical-experience-of-a-single-center
#18
Tzu-Hao Huang, Junne-Yih Kuo, Yi-Hsiu Huang, Hsiao-Jen Chung, William J S Huang, Howard H H Wu, Yen-Hwa Chang, Alex T L Lin, Kuang-Kuo Chen
BACKGROUND: In the general population, prostate adenocarcinoma affects predominately older men. If fact, most current guidelines suggest that males over the age of 50 years should undergo prostate cancer screening. However, the clinical behavior and prognosis of prostate cancer in young adults is not well defined. The aim of this study was to evaluate the clinical behavior, pathological characteristics, and prognosis of prostate cancer in young adults. METHODS: We retrospectively reviewed the records of young patients (age, ≤50 years) in our hospital with prostate adenocarcinoma between 1997 and 2013...
January 2017: Journal of the Chinese Medical Association: JCMA
https://www.readbyqxmd.com/read/27903913/functional-rnas-combined-assembly-and-packaging-in-vlps
#19
Po-Yu Fang, Lizzette M Gómez Ramos, Stefany Y Holguin, Chiaolong Hsiao, Jessica C Bowman, Hung-Wei Yang, Loren Dean Williams
We describe here a one pot RNA production, packaging and delivery system based on bacteriophage Qβ. We demonstrate a method for production of a novel RNAi scaffold, packaged within Qβ virus-like particles (VLPs). The RNAi scaffold is a general utility chimera that contains a functional RNA duplex with paired silencing and carrier sequences stabilized by a miR-30 stem-loop. The Qβ hairpin on the 5΄ end confers affinity for the Qβ coat protein (CP). Silencing sequences can include mature miRNAs and siRNAs, and can target essentially any desired mRNA...
April 7, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/27881825/effects-of-a-gut-pathobiont-in-a-gnotobiotic-mouse-model-of-childhood-undernutrition
#20
Vitas E Wagner, Neelendu Dey, Janaki Guruge, Ansel Hsiao, Philip P Ahern, Nicholas P Semenkovich, Laura V Blanton, Jiye Cheng, Nicholas Griffin, Thaddeus S Stappenbeck, Olga Ilkayeva, Christopher B Newgard, William Petri, Rashidul Haque, Tahmeed Ahmed, Jeffrey I Gordon
To model how interactions among enteropathogens and gut microbial community members contribute to undernutrition, we colonized gnotobiotic mice fed representative Bangladeshi diets with sequenced bacterial strains cultured from the fecal microbiota of two 24-month-old Bangladeshi children: one healthy and the other underweight. The undernourished donor's bacterial collection contained an enterotoxigenic Bacteroides fragilis strain (ETBF), whereas the healthy donor's bacterial collection contained two nontoxigenic strains of B...
November 23, 2016: Science Translational Medicine
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