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Next Generation Sequencing (NGS)-Based Post-Transplant Monitoring in Acute Myeloid Leukemia Patients Receiving Allogeneic Hematopoietic Stem Cell Transplantation (HCT)

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BLOOD 2017年第Sup1期130卷 271-271页

作者： Kim, Taehyung Moon, Joon Ho Ahn, Jae-Sook Tyndel, Marc S. Kim, Yeo-Kyeoung Lee, Seung-Shin Ahn, Seo-Yeon Jung, Sung-Hoon Yang, Deok-Hwan Lee, Je-Jung Choi, Seunghyun Shin, Myung-Geun Kook, Hoon Kim, Sun-Hee Park, Seong Kyu Kim, Hyeoung-Joon Zhang, Zhaolei Kim, Dennis (Dong-Hwong) Donnelly Centre for Cellular and Biomolecular Research University of Toronto Toronto Canada Department of Computer Science University of Toronto Toronto Canada Kyungpook National University Hospital Daegu Korea Republic of (South) Department of Hematology-Oncology Chonnam National University Hwasun Hospital Hwasun-Gun Korea Republic of (South) The Edward S. Rogers Sr. Department of Electrical and Computer Engineering University of Toronto Toronto Canada Genome Research Center for Hematopoietic Disease Chonnam National University Hwasun Hospital Hwasun Korea Republic of (South) Department of Hematology-Oncology Chonnam National University Hwasun Hospital Hwasun Korea Republic of (South) Department of Hematology-Oncology Chonnam National University Hwasun Hospital Hwasun-gun Korea Republic of (South) Hematology-Oncology Chonnam National University Hwasun Hospital Hwasun Korea Republic of (South) Department of Hematology-Oncology Chonnam National University Hwasun Hospital Hwasun Korea Republic of (South) Hematopoietic Genomics Research Centre Chonnam National University Hwasun Hospital Hwasun-gun Korea Republic of (South) Departments of Laboratory Medicine Chonnam National Univ. Hwasun Hosp. Hwasun-gun South Korea Chonnam National Univ. Hwasun Hospital Hwasun-Gun KOR Samsung Medical Center Seoul KOR Soonchunhyang University Bucheon Hospital Bucheon Korea Republic of (South) Department of Molecular Genetics University of Toronto Toronto Canada Blood and Marrow Transplant Program Department of Medical Oncology and Hematology Princess Margaret Cancer Centre University Health Network Toronto Canada

Objective To assess applicability of serial next generation sequencing (NGS) in monitoring acute myeloid leukemia (AML) patients after allogeneic hematopoietic stem cell transplantation (HCT). Introduction Clinical application of NGS in allogeneic HCT is a topic of interest. Post-HCT mutation dynamics using longitudinal NGS have not been thoroughly examined. We hypothesized that serial sequencing of pre- and post-HCT using NGS could provide a clinically relevant value in AML patients receiving HCT. The present study aimed to evaluate mutation dynamics in AML using serial samples from pre- and post-HCT with respect to transplant outcomes. Patients and Methods 104 AML patients were enrolled and sequenced using an Illumina HiSeq 2000 sequencer (84 myeloid custom gene panel) on 529 bone marrow/peripheral blood samples at diagnosis (n=104), pre-HCT (n=104), 21 days post-HCT (n=104), at 6 (n= 38), 12 (n= 20), beyond 12 months (n=4) and at relapse (n=20). Two patients relapsed by day 21. T-cell (n=80) and donor samples (n=57) were also sequenced. All computational and statistical analyses were performed using Python and R. Results The average on-target coverage in 529 samples was 1725.6x. In total, we detected 256 mutations at diagnosis in 90/104 patients (86.5%, median 3 mutations per patient). DNMT3A ( n=26, 25.0%), NPM1 ( n=23, 22.1%), CEBPA ( n=15, 14.4%), IDH2 ( n=15, 14.4%), FLT3 (n=14, 13.5%), PTPN11 (n=11, 10.6%) , and NRAS (n=11, 10.6%) were commonly mutated at diagnosis (Figure A). When grouped by 8 defined biological pathways, activated signaling (n=45, 43.2%), DNA methylation (n=44, 42.3%), NPM1 (n=23, 22.1%), and myeloid transcription factors (n=21, 20.2%) were mutated in more than 20% of the cohort (Figure B). Assessment of mutation dynamics in serial samples revealed that mutations from non-relapsed patients show rapid clearance after HCT without acquisition of somatic mutations and that allelic burden is maintained at very low level in longer follow-up peri

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Byzantine fault tolerance for collaborative editing with commutative operations

Byzantine fault tolerance for collaborative editing with com...

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2016 IEEE International Conference on Electro Information Technology, EIT 2016

作者： Zhao, Wenbing Babi, Mamdouh William, Yang Luo, Xiong Zhu, Yueqin Jack, Yang Chaomin, Luo Yang, Mary Department of Electrical Engineering and Computer Science Cleveland State University ClevelandOH44115 United States Texas Advanced Computing Center University of Texas at Austin 10100 Burnet Road AustinTX78758 United States School of Computer and Communication Engineering University of Science and Technology Beijing Beijing100083 China Development Research Center of China Geological Survey Ministry of Land and Resources Beijing100037 China Division of Biostatistics and Biomathematics Massachusetts General Hospital and Harvard Medical School BostonMA United States Department of Electrical and Computer Engineering University of Detroit Mercy DetroitMI48221 United States Department of Information Science George Washington Donaghey College of Engineering and Information Technology Joint Bioinformatics Program of University of Arkansas at Little Rock University of Arkansas for Medical Sciences 2801 S. University Avenue Little RockAR72204 United States

ISBN: (纸本)9781467399852

In this paper, we present a study on how to achieve Byzantine fault tolerance for collaborative editing systems with commutative operations. Recent research suggests that Conflict-free Replicated Data Types (CRDTs) can be used to construct collaborative editing systems where concurrent update operations are commutative. This new approach is shown to avoid the complex issue of conflict resolution for concurrent updates to a shared document. The shared document is often modeled as a linear text buffer where each basic element is assigned a globally unique and totally ordered identifier. The linear text buffer constructed this way would constitute as a CRDT, which would make concurrent update operations issued by different users commutative. State convergence at all users can be achieved automatically as long as the users could receive the same set of operations irrespective of their relative ordering. However, it is not straightforward to guarantee state convergence in the presence of malicious users and external adversaries. In this paper, we carefully analyze the threats towards this type of systems, and propose a lightweight solution to achieve Byzantine fault tolerance with low runtime overhead. We define a set of correctness properties for such systems and prove that the proposed Byzantine fault tolerance mechanisms guarantee these properties. © 2016 IEEE.

关键词： Fault tolerance

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Synaptic depression depends on charge delivered to network

Synaptic depression depends on charge delivered to network

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Annual International Conference of the IEEE engineering in Medicine and Biology Society (EMBC)

作者： Robert D. Graham Sharon Jose Alex Kaiser Nathalia Peixoto Department of Bioengineering George Mason University Fairfax VA USA Thomas Jefferson High School of Science and Technology Alexandria VA USA Department of Electrical and Computer Engineering George Mason University Fairfax VA USA

In vitro neuronal networks cultured on microelectrode arrays enable the study of network electrophysiology on a fundamental level. Neuronal response to electrical stimulation is an area of interest at the laboratory bench and in the clinic, given its wide application for remedying neurological disorders. Here we investigated the change in cortical network response over time to varied amounts of charge used for stimulation, which may lead to a phenomenon known as selective adaptation. There is a charge threshold that invokes a reverberating network response; when stimulating at 900 mV, five stimulation electrodes were required to elicit a response across the entire network. Stimulating with more charge leads to greater synaptic depression over time when constant periodic stimulation is applied. Stimulating with 5 electrodes led to a decrease in network response to stimulation, whereas stimulating with 12 electrodes led to an extinction of network response. The previously hypothesized selective adaptation mechanism was not observed, implying that our random cortical assemblies have homogeneous excitatory and inhibitory subnetworks.

关键词： Protocols In vitro Microelectrodes electrical stimulation Neurons Reliability

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Single Cell Genomics: Whole Genome Sequencing of Single Circulating Tumor Cells Isolated by Applying a Pulsed Laser to Cell-Capturing Microstructures (Small 37/2019)

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Small 2019年第37期15卷

作者： Okju Kim Daewon Lee Amos Chungwon Lee Yongju Lee Hyung Jong Bae Han-Byoel Lee Ryong Nam Kim Wonshik Han Sunghoon Kwon Department of Electrical and Computer Engineering Institute of Engineering Research Seoul National University 1 Gwanak-ro Gwanak-gu Seoul 08826 Republic of Korea Interdisciplinary Program in Bioengineering Seoul National University 1 Gwanak-ro Gwanak-gu Seoul 08826 Republic of Korea BK21+ Creative Research Engineer Development for IT Seoul National University 1 Gwanak-ro Gwanak-gu Seoul 08826 Republic of Korea Nano Systems Institute Seoul National University 1 Gwanak-ro Gwanak-gu Seoul 08826 Republic of Korea Department of Surgery Seoul National University College of Medicine 101 Daehak-ro Jongno-gu Seoul 03080 Republic of Korea Biomedical Research Institute Seoul National University Hospital 101 Daehak-ro Jongno-gu Seoul 03080 Republic of Korea Cancer Research Institute Seoul National University 101 Daehak-ro Jongno-gu Seoul 03080 Republic of Korea Institutes of Entrepreneurial BioConvergence Seoul National University 1 Gwanak-ro Gwanak-gu Seoul 08826 Republic of Korea Inter-University Semiconductor Research Center 1 Gwanak-ro Gwanak-gu Seoul 08826 Republic of Korea

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High Power LED Luminaire Design Optimization

High Power LED Luminaire Design Optimization

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IEEE International Conference on Environment and electrical engineering

作者： Jose Luiz F. Barbosa Wesley P. Calixto Dan Simon University of Brasilia Program in Electronic Systems and Automation (PGEA) Brasilia-DF Brazil Cleveland State University Department of Electrical Engineering and Computer Science Cleveland Ohio USA

ISBN: (纸本)9781509023219

A methodology for optimizing the geometry of a high power (HP) light emitting diode (LED) luminaire is presented in this paper. The arrangement of a HP-LED luminaire is evaluated, technically and economically, for outdoor lighting. Parameters that affect both heat dissipation and lighting efficiency are considered. A finite element method (FEM) simulator is used to determine the thermal analysis and a stochastic ray tracing simulator is used to perform the lighting distribution. The thermal analysis of a HP-LED luminaire model is simulated and validated with 7.5% average error in LED temperature. An evaluation function is developed that considers the illuminance distribution on the target plane and the maximum temperature that reaches the LED chip. Optimized thermal and luminous results are presented and discussed.

关键词： high power LED LED luminaire optimization illuminance distribution thermal heat dissipation

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Dynamic phantom measurements to validate a tomographic optical breast imaging system

Dynamic phantom measurements to validate a tomographic optic...

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Optical Tomography and Spectroscopy, OTS 2016

作者： Zimmermann, Bernhard B. Deng, Bin Singh, Bhawana Fang, Qianqian Boas, David A. Carp, Stefan A. Harvard Medical School Massachusetts General Hospital Athinoula A. Martinos Center for Biomedical Imaging Bldg 149 13th street Rm 2301 CharlestownMA02129 United States Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology 77 Massachusetts Avenue CambridgeMA02139 United States Department of Bioengineering Northeastern University 360 Huntington Avenue BostonMA02115 United States

We validated the temporal imaging performance of our second generation tomographic optical breast imaging system (TOBI2) by performing measurements on a silicone phantom containing spherical glass-free inclusions. The... 详细信息

ISBN: (纸本)9781943580101

关键词： Silicones

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A Hybrid Deep Learning Forecasting Model Using GPU Disaggregated Function Evaluations Applied for Household Electricity Demand Forecasting

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Energy Procedia 2016年 103卷 280-285页

作者： Vitor N. Coelho Igor M. Coelho Eyder Rios Alexandre S.T. Filho Agnaldo J.R. Reis Bruno N. Coelho Alysson Alves Guilherme G. Netto Marcone J.F. Souza Frederico G. Guimarães Graduate Program in Electrical Engineering Universidade Federal de Minas Gerais Belo Horizonte Brazil Instituto de Pesquisa e Desenvolvimento de Tecnologias Ouro Preto Brazil Department of Computer Science State University of Rio de Janeiro Rio de Janeiro Brazil Institute of Computer Science Fluminense Federal University Niteroi Brazil Department of Control Engineering and Automation Universidade Federal de Ouro Preto Ouro Preto Brazil Department of Computer Science Universidade Federal de Ouro Preto Ouro Preto Brazil Department of Electrical Engineering Universidade Federal de Minas Gerais BeloHorizonte Brazil

As the new generation of smart sensors is evolving towards high sampling acquisitions systems, the amount of information to be handled by learning algorithms has been increasing. The Graphics Processing Unit (GPU) architectures provide a greener alternative with low energy consumption for mining big-data, harnessing the power of thousands of processing cores in a single chip, opening a widely range of possible applications. Here, we design a novel evolutionary computing GPU parallel function evaluation mechanism, in which different parts of time series are evaluated by different processing threads. By applying a metaheuristics fuzzy model in a low-frequency data for household electricity demand forecasting, results suggested that the proposed GPU learning strategy is scalable as the number of training rounds increases.

关键词： Microgrid Household Electricity Demand Deep Learning Graphics Processing Unit Parallel forecasting model Big Time-series Data

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On the Study of PEM Fuel Cells by Transmission Electron Microscopy

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Microscopy and Microanalysis 2016年第S3期22卷 1280-1281页

作者： S. Rasouli D. Groom K. Yu A. Godoy A. Bovik D. Myers Naotoshi Nakashima P. J. Ferreira Materials Science and Engineering Program University of Texas at Austin Austin TX Department of Electrical and Computer Engineering University of Texas at Austin Austin TX Argonne National Laboratory Argonne Illinois United States Department of Applied Chemistry Kyushu University Fukuoka Japan

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Optical manipulation of shape-morphing elastomeric liquid crystal microparticles doped with gold nanocrystals

arXiv

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arXiv 2017年

作者： Sun, Yaoran Evans, Julian S. Lee, Taewoo Senyuk, Bohdan Keller, Patrick He, Sailing Smalyukh, Ivan I. Department of Physics Material Science and Engineering Program Department of Electrical Computer & Energy Engineering and Liquid Crystal Materials Research Center University of Colorado BoulderCO80309 United States Centre for Optical and Electromagnetic Research Zhejiang University Hangzhou310058 China Institut Curie Centre de Recherche CNRS UMR 168 Université Pierre et Marie Curie Paris cedex 0575248 France Department of Chemistry and Biochemistry and Liquid Crystal Materials Research Center University of Colorado BoulderCO80309 United States Department of Electromagnetic Engineering Royal Institute of Technology StockholmS-100 44 Sweden Renewable and Sustainable Energy Institute National Renewable Energy Laboratory University of Colorado BoulderCO80309 United States

We demonstrate facile optical manipulation of shape of birefringent colloidal microparticles made from liquid crystal elastomers. Using soft lithography and polymerization, we fabricate elastomeric microcylinders with weakly undulating director oriented on average along their long axes. These particles are infiltrated with gold nanospheres acting as heat transducers that allow for an efficient localized transfer of heat from a focused infrared laser beam to a submicrometer region within a microparticle. Photothermal control of ordering in the liquid crystal elastomer using scanned beams allows for a robust control of colloidal particles, enabling both reversible and irreversible changes of shape. Possible applications include optomechanics, microfluidics, and reconfigurable colloidal composites with shape-dependent self-assembly. Copyright © 2017, The Authors. All rights reserved.

关键词： Liquid crystals

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Optimization of culture and analysis methods for enhancing long-term Brugia malayi survival, molting and motility in vitro

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Parasitology Open 2018年 4卷 e3-e3页

作者： I. M. Lu T. Kassis A. M. Rogers A. Schudel J. Weil C. C. Evans A. R. Moorhead S. N. Thomas J. B. Dixon Parker H. Petit Institute for Bioengineering & Bioscience Georgia Institute of Technology Atlanta GA 30332 USA George W. Woodruff School of Mechanical Engineering Georgia Institute of Technology Atlanta GA 30332 USA School of Electrical and Computer Engineering Georgia Institute of Technology Atlanta GA 30332 USA School of Materials Science and Engineering Georgia Institute of Technology Atlanta GA 30332 USA School of Chemical & Biomolecular Engineering Georgia Institute of Technology Atlanta GA 30332 USA Department of Infectious Diseases College of Veterinary Medicine University of Georgia Athens GA 30602 USA Winship Cancer Institute Emory University Atlanta GA 30322 USA Wallace H. Coulter Department of Biomedical Engineering Georgia Institute of Technology Atlanta GA 30332 USA

Lymphatic filariasis is a neglected tropical disease caused by roundworm parasites such as Brugia malayi that spread via a mosquito vector. In vitro culture of these parasites provides controlled conditions to understand parasite biology and provides a cheaper way to screen potential micro- and macrofilaricides. Published studies have used a wide array of approaches and metrics regarding in vitro cultures of B. malayi; as a result, drawing comparisons and identifying the reasons why inability to reproduce outcomes are difficult. This study sought to determine conditions that ensure reproducible outcomes and used evaluation metrics that are easily measured and can be automated to ensure objectivity. We found culturing B. malayi third-stage larvae (L3) in endothelial basal media supplemented with 20% fetal bovine serum and 75 µm ascorbic acid in a temperature- and humidity-controlled incubator produced better survival and molting rates as well as longer and more motile parasites than previously reported. The benefit of ascorbic acid seemed to be unique to L3 parasites, as the addition of ascorbic acid to adult parasites had no significant impact on survival or motility. The methods reported in this study will help in designing experiments for both parasite behaviour studies and drug screening applications for disease eradication.

关键词： Ascorbic acid Brugia malayi long-term culture lymphatic filariasis

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