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International Conference on Information Management and Technology (ICIMTech)

作者： Noerlina Siti Elda Hiererra Bahtiar Saleh Abbas Brilly Andro Makalew Desi Maya Kristin Tirta Nugraha Mursitama David Information Systems Department Bina Nusantara University Jakarta Indonesia Industrial Engineering Department Bina Nusantara University Jakarta Indonesia Mobile Application & Technology Program Bina Nusantara University Jakarta Indonesia International Relations Department Bina Nusantara University Jakarta Indonesia Computer Science Department Bina Nusantara University Jakarta Indonesia

The following topics are dealt with: Internet; organisational aspects; data analysis; educational institutions; information systems; knowledge management; statistical analysis; further education; computer aided instru... 详细信息

关键词： Manuals Education Proposals Information systems Requirements engineering System analysis and design Conferences

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Predictable and precise template-free CRISPR editing of pathogenic variants (vol 563, pg 646, 2018)

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NATURE 2019年第7746期567卷 E1-E2页

作者： Shen, Max W. Arbab, Mandana Hsu, Jonathan Y. Worstell, Daniel Culbertson, Sannie J. Krabbe, Olga Cassa, Christopher A. Liu, David R. Gifford, David K. Sherwood, Richard I. Computational and Systems Biology Program Massachusetts Institute of Technology Cambridge USA Computer Science and Artificial Intelligence Laboratory Massachusetts Institute of Technology Cambridge USA Merkin Institute of Transformative Technologies in Healthcare Broad Institute of Harvard and MIT Cambridge USA Department of Chemistry and Chemical Biology Harvard University Cambridge USA Howard Hughes Medical Institute Harvard University Cambridge USA Department of Biological Engineering Massachusetts Institute of Technology Cambridge USA Molecular Pathology Unit Center for Cancer Research and Center for Computational and Integrative Biology Massachusetts General Hospital Charlestown USA Division of Genetics Department of Medicine Brigham and Women’s Hospital and Harvard Medical School Boston USA Hubrecht Institute for Developmental Biology and Stem Cell Research Royal Netherlands Academy of Arts and Sciences (KNAW) Utrecht The Netherlands Broad Institute of MIT and Harvard Cambridge USA Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology Cambridge USA

In this Article, a data processing error affected Fig. 3e and Extended Data Table 2; these errors have been corrected online.

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Applying the MVC EA-IRPM to reporting-guidelines in medicine: A strategy that is a web system 4

Applying the MVC EA-IRPM to reporting-guidelines in medicine...

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4th IEEE EMBS International Conference on Biomedical and Health Informatics, BHI 2017

作者： Letouze, Patrick De Souza, J.I.M. Silva, Valeria Martins Climaco, Glaubos Chagas, F.B. Ishihara, Joao Y. Graduate Program of Computational Modeling of Systems Universidade Federal Do Tocantins Quadra 109 Norte Avenida NS-15 Palmas77001-090 Brazil Graduate Program of Systems' Engineering and Computation - PESC Universidade Federal Do Rio de Janeiro Rio de Janeiro Brazil Department of Informatics at the Universidade Federal Do Maranh/ Ao - UFMA Brazil Faculty of Computer Science Faculdade Pitagoras Imperatriz Imperatriz Brazil Faculty of Electrical Engineering Universidade de Brasília Brasília Brazil

ISBN: (纸本)9781509041794

Reporting-Guidelines in Medicine play an important role in promoting the quality of reports in health-related research. For instance, a poorly reported research may induce misinterpretation and inappropriate clinical settings. Basically, three major issues regarding Reporting-Guidelines in Medicine has to be addressed: (1) the existence of lots of reporting guidelines covering a broad spectrum of medical research increases the difficulties when reporting a medical research because it may not be clear which guidelines are applicable, or if all related guidelines are considered;(2) most guideline developers have not described how their guidance was developed, consequently tracking guidelines and features for evaluation, or even for correcting, may be not possible;(3) few guideline developers have evaluated the effectiveness of their guidance, then the real value that the guideline brings to reporting the research is not assured. Hence, we propose a solution to these three issues based on the Model-View-Controller Evolutionary Acquisition Interdisciplinary Research Project Management (MVC EA-IRPM) that is simultaneously a strategy and a web system for the development and management of reporting guidelines. © 2017 IEEE.

关键词： Clinical research

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A molecular single-cell lung atlas of lethal COVID-19 (vol 595, pg 114, 2021)

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NATURE 2021年第7882期598卷 E2-E2页

作者： Melms, Johannes C. Biermann, Jana Huang, Huachao Wang, Yiping Nair, Ajay Tagore, Somnath Katsyv, Igor Rendeiro, Andre F. Amin, Amit Dipak Schapiro, Denis Frangieh, Chris J. Luoma, Adrienne M. Filliol, Aveline Fang, Yinshan Ravichandran, Hiranmayi Clausi, Mariano G. Alba, George A. Rogava, Meri Chen, Sean W. Ho, Patricia Montoro, Daniel T. Kornberg, Adam E. Han, Arnold S. Bakhoum, Mathieu F. Anandasabapathy, Niroshana Suarez-Farinas, Mayte Bakhoum, Samuel F. Bram, Yaron Borczuk, Alain Guo, Xinzheng V. Lefkowitch, Jay H. Marboe, Charles Lagana, Stephen M. Del Portillo, Armando Tsai, Emily J. Zorn, Emmanuel Markowitz, Glen S. Schwabe, Robert F. Schwartz, Robert E. Elemento, Olivier Saqi, Anjali Hibshoosh, Hanina Que, Jianwen Izar, Benjamin Department of Medicine Division of Hematology/Oncology Columbia University Irving Medical Center New York NY USA Columbia Center for Translational Immunology Columbia University Irving Medical Center New York NY USA Herbert Irving Comprehensive Cancer Center Columbia University Irving Medical Center New York NY USA Program for Mathematical Genomics Columbia University New York NY USA Columbia Center for Human Development Columbia University Irving Medical Center New York NY USA Division of Digestive and Liver Diseases Columbia University Irving Medical Center New York NY USA Department of Medicine Columbia University Irving Medical Center New York NY USA Institute of Human Nutrition Columbia University New York NY USA Department of Systems Biology Columbia University Irving Medical Center New York NY USA Department of Pathology and Cell Biology Columbia University Irving Medical Center New York NY USA Institute for Computational Biomedicine Weill Cornell Medicine New York NY USA Caryl and Israel Englander Institute for Precision Medicine Weill Cornell Medicine New York NY USA WorldQuant Initiative for Quantitative Prediction Weill Cornell Medicine New York NY USA Department of Physiology and Biophysics Weill Cornell Medical College New York NY USA Department of Dermatology Weill Cornell Medical College New York NY USA Meyer Cancer Center Weill Cornell Medical College New York NY USA Laboratory of Systems Pharmacology Harvard Medical School Boston MA USA Klarman Cell Observatory Broad Institute of MIT and Harvard Cambridge MA USA Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology Cambridge MA USA Department of Cancer Immunology and Virology Dana-Farber Cancer Center Boston MA USA Human Immune Monitoring Core Columbia University Irving Medical Center New York NY USA Department of Medicine Division of Pulmonary and Critical Care Massachusetts General Hospital Boston MA USA Cell Circu

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BioWorkbench: A high-performance framework for managing and analyzing bioinformatics experiments

arXiv

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arXiv 2018年

作者： Mondelli, Maria Luiza Magalhães, Thiago Loss, Guilherme Wilde, Michael Foster, Ian Mattoso, Marta Katz, Daniel S. Barbosa, Helio J.C. Vasconcelos, Ana Tereza R. Ocaña, Kary Gadelha, Luiz M.R. National Laboratory for Scientific Computing Petrópolis Brazil Computation Institute Argonne National Laboratory University of Chicago Chicago United States Computer and Systems Engineering Program Federal University of Rio de Janeiro Brazil National Center for Supercomputing Applications University of Illinois Urbana United States Federal University of Juiz de Fora Minas Gerais Brazil

Advances in sequencing techniques have led to exponential growth in biological data, demanding the development of large-scale bioinformatics experiments. Because these experiments are computation- and data-intensive, they require high-performance computing (HPC) techniques and can benefit from specialized technologies such as Scientific Workflow Management systems (SWfMS) and databases. In this work, we present BioWorkbench, a framework for managing and analyzing bioinformatics experiments. This framework automatically collects provenance data, including both performance data from workflow execution and data from the scientific domain of the workflow application. Provenance data can be analyzed through a web application that abstracts a set of queries to the provenance database, simplifying access to provenance information. We evaluate BioWorkbench using three case studies: SwiftPhylo, a phylogenetic tree assembly workflow;SwiftGECKO, a comparative genomics workflow;and RASflow, a RASopathy analysis workflow. We analyze each workflow from both computational and scientific domain perspectives, by using queries to a provenance and annotation database. Some of these queries are available as a pre-built feature of the BioWorkbench web application. Through the provenance data, we show that the framework is scalable and achieves high-performance, reducing up to 98% of the case studies execution time. We also show how the application of machine learning techniques can enrich the analysis process. Copyright © 2018, The Authors. All rights reserved.

关键词： Bioinformatics

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Abstracts

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JOURNAL OF SPINAL CORD MEDICINE 2021年第SUPPL 1期44卷 S278-S324页

作者： [Anonymous] Department of Medicine Division of Physical Medicine and Rehabilitation University of Toronto Toronto ON CA KITE - Toronto Rehabilitation Institute University Health Network Toronto ON CA Institute for Health Policy Management and Evaluation University of Toronto Toronto ON CA Rehabilitation Sciences Institute University of Toronto Toronto ON CA Institute of Medical Sciences University of Toronto Toronto ON CA. Rehabilitation Sciences Institute University of Toronto ON CA KITE Research Institute-Toronto Rehab-University Health Network Toronto ON CA Physical Therapy Department University of Toronto ON CA Praxis Spinal Cord Institute Vancouver BC Université de Montréal (École de réadaptation) Montreal QC CA Institut de réadaptation Gingras-Linsay-de-Montréal Montreal QC CA Division of Physical Medicine & Rehabilitation Department of Medicine Faculty of Medicine & Dentistry University of Alberta Edmonton AB CA University of Calgary Calgary AB CA Alberta Health Services Centre for Family Medicine Kitchener ON CA McMaster University Department of Family Medicine Hamilton ON CA Dept. of Physical Therapy University of Toronto Toronto ON CA KITE-University Health Network Toronto ON CA Praxis Spinal Cord Institute Vancouver BC CA Center for Interdisciplinary Research in Rehabilitation and Social Integration (CIRRIS) Quebec City QC CA Dept. of Rehabilitation Laval University Quebec City QC CA Institute of Health Policy Management and Evaluation University of Toronto Toronto ON CA School of Rehabilitation Science University of Saskatchewan Saskatoon SK CA Ontario Neurotrauma Foundation Toronto ON CA Canadian Spinal Research Organization Toronto ON CA CIUSSS du Centre-Sud-de-l ‘Île-de-Montréal (Installation Gingras-Lindsay) Montréal QC CA École de réadaptation Université de Montréal Montréal QC CA First Steps Wellness Centre Regina SK CA Stan Cassidy Centre for Rehabilitation Horizon Health Network Fredericton NB CA Departmen

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Vibration-based classification of road damages: gyroscope data and a simple neural network model

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IOP Conference Series: Earth and Environmental Science 2018年第1期195卷

作者： Fergyanto E. Gunawan Herriyandi Benfano Soewito Tuga Mauritsius Nico Surantha Industrial Engineering Department BINUS Graduate Program - Master of Industrial Engineering Bina Nusantara University Jakarta Indonesia 11480 Computer Science Department BINUS Graduate Program - Master of Computer Science Bina Nusantara University Jakarta Indonesia 11480 Information Systems Management Department BINUS Graduate Program - Master of Information Systems Management Bina Nusantara University Jakarta Indonesia 11480

A system for automatic detection of road damages is essential for logistics management. At the core of the system lies an algorithm for classification of damages. This work intends to establish such an algorithm. In the current proposal, the algorithm receives data of the probe vehicle rate of rotations, extracts statistics descriptive from the data to produce a feature vector, and finally, feeds the vector to a simple-three-layer neural network to classify the damages. The types of damages are limited to four cases: normal, pothole, speed bump, and expansion joint. For the development, a probe vehicle is used to produce 400 empirical data involving those four damage cases. By using Monte Carlo approach, the established neural network model is evaluated. The results show that the approach is able to classify the cases with 85% accuracy. The study also finds that the rates of pitch and roll to be the determining factors.

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Framework for selecting the preferred networked computer system for dynamic continuous missions

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CrossTalk 2017年第2期30卷 17-21页

作者： Tolentino, Glenn Tian, Jeff Stracener, Jerrell Command and Control Department Space and Naval Warfare Systems Center Pacific San DiegoCA United States United States School of Computer Science Northwestern Polytechnical University Xi'an China Systems Engineering Program United States

This paper presents a framework for selecting a combination of existing systems to satisfy new, emerging requirements while reusing existing and proven capabilities to ensure mission success. Decision attributes will be considered during the selection process and will be used to measure the networked computer system's effectiveness to accomplish the mission. This approach will enable system stakeholders to make critical, well-informed decisions to address the continuing evolution of missions, threats, budget and technology.

关键词： Budget control

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Applying Standard Independent Verification and Validation (IV&V) Techniques within an Agile Framework: Is there a Compatibility Issue?

Applying Standard Independent Verification and Validation (I...

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International systems Conference

作者： James B. Dabney James D. Arthur Department of Computer Science Virginia Polytechnic Institute and State University Blacksburg Virginia Systems Engineering Program University of Houston - Clear Lake Houston Texas

ISBN: (纸本)9781509046249

Agile methods have gained wide acceptance over the past several years, to the point that they are now a standard management and execution approach for small-scale software development projects. While conventional Agile methods are not generally applicable to large multi-year and mission-critical systems, Agile hybrids are now being developed (such as SAFe) to exploit the productivity improvements of Agile while retaining the necessary process rigor and coordination needs of these projects. From the perspective of Independent Verification and Validation (IV&V), however, the adoption of these hybrid Agile frameworks is becoming problematic. Hence, we find it prudent to question the compatibility of conventional IV&V techniques with (hybrid) Agile practices. This paper documents our investigation of (a) relevant literature, (b) the modification and adoption of Agile frameworks to accommodate the development of large scale, mission critical systems, and (c) the compatibility of standard IV&V techniques within hybrid Agile development frameworks. Specific to the latter, we found that the IV&V methods employed within a hybrid Agile process can be divided into three groups: (1) early lifecycle IV&V techniques that are fully compatible with the hybrid lifecycles, (2) IV&V techniques that focus on tracing requirements, test objectives, etc. are somewhat incompatible, but can be tailored with a modest effort, and (3) IV&V techniques involving an assessment requiring artifact completeness that are simply not compatible with hybrid Agile processes, e.g., those that assume complete requirement specification early in the development lifecycle.

关键词： Independent Verification and Validation Agile

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Enhancing diffusion MRI measures by integrating grey and white matter morphometry with hyperbolic wasserstein distance

Enhancing diffusion MRI measures by integrating grey and whi...

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IEEE International Symposium on Biomedical Imaging

作者： Wen Zhang Jie Shi Jun Yu Liang Zhan Paul M. Thompson Yalin Wang Decision Systems Engineering Arizona State Univ Tempe AZ Computer Engineering Program University of Wisconsin-Stout Menomonie WI Imaging Genetics Center University of Southern California CA

ISBN: (纸本)9781509011735

In order to improve the preclinical diagnose of Alzheimer's disease (AD), there is a great deal of interest in analyzing the AD related brain structural changes with magnetic resonance image (MRI) analyses. As the major features, variation of the structural connectivity and the cortical surface morphometry provide different views of structural changes to determine whether AD is present on presymptomatic patients. However, the large scale tensor-valued information and relatively low imaging resolution in diffusion MRI (dMRI) have created huge challenges for analysis. In this paper, we propose a novel framework that improves dMRI analysis power by fusing cortical surface morphometry features from structural MRI (sMRI). We first compute the hyperbolic harmonic maps between cortical surfaces with the landmark constraints thus to precisely evaluate surface tensor-based morphometry. Meanwhile, the graph-based analysis of structural connectivity derived from dMRI is conducted. Next, we fuse these two features via the optimal mass transportation (OMT) and eventually the Wasserstein distance (WD) based single image index is computed as a potential clinical multimodality imaging score. We apply our framework to brain images of 20 AD patients and 20 matched healthy controls, randomly chosen from the Alzheimer's Disease Neuroimaging Initiative (ADNI2) dataset. Our preliminary experimental results of group classification outperformed those of some other single dMRI-based features, such as regional hippocampal volume, mean scores of fractional anisotropy (FA) and mean axial (MD). The novel image fusion pipeline and simple imaging score of structural changes may benefit the preclinical AD and AD prevention research.

关键词： Brain Harmonic analysis Measurement Magnetic resonance imaging Alzheimer's disease

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