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Metabolomics and network biology for sensitive monitoring of how growth environment changes affect the physiology of industrial-scale perfusion cultures

Metabolomics and network biology for sensitive monitoring of...

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12th IFAC Symposium on Computer Applications in Biotechnology, CAB 2013

作者： Vernardis, S.I. Goudar, C.T. Klapa, M.I. Metabolic Engineering and Systems Biology Laboratory Institute of Chemical Engineering Foundation for Research and Technology-Hellas Patras GR-265 04 Greece Cell Culture Development Global Biological Development Bayer HealthCare 800 Dwight Way Berkeley CA 94710 United States Interdepartmental Graduate Program in Informatics in Life Sciences Medical School University of Patras Greece Cell Science and Technology AMGEN Inc. Thousand Oaks CA 91320 United States Depts. of Chemical and Biomolecular Eng. and Bioengineering University of Maryland College Park MD 20742 United States

ISBN: (纸本)9783902823588

Metabolomic analysis can indeed enhance the prime variable dataset for the monitoring of perfusion cultures by providing a higher resolution view of the metabolic state. Metabolic profiles can capture physiological state shifts over the course of the perfusion cultures and indicate a metabolic "signature" of the phase transitions, which is not observable from prime variable data. Notably, metabolomics provides orthogonal (to prime variables) evidence that all cultures follow this same metabolic state shift with cell age, independently of bioreactor scale. Additionally, this analysis can increase the information content of process development experiments by helping better understand the impact of changes in bioreactor operating conditions on cell physiology. In this context, metabolic profiling could be integrated into the monitoring of cell physiology in perfusion cultures. © IFAC.

关键词： Bioreactors

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Tracking and Counting Vehicles in Traffic Video Sequences Using Particle Filtering

Tracking and Counting Vehicles in Traffic Video Sequences Us...

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IEEE International Instrumentation and Measurement Technology Conference

作者： Christiano Bouvie Jacob Scharcanski Pablo Barcellos Fabiano Lopes Escouto Graduate Program on Electrical Engineering Federal University of Rio Grande do Sul - UFRGS Porto Alegre Brazil Institute of Informatics and Graduate Program on Electrical Engineering Federal University of Rio Grande do Sul - UFRGS Porto Alegre Brazil Institute of Informatics Federal University of Rio Grande do Sul - UFRGS Porto Alegre Brazil DIGICON S.A.

ISBN: (纸本)9781467346214

This paper presents a new method to track and count vehicles in video traffic sequences. The proposed method uses image processing, particle filtering, and motion coherence to group particles in videos, forming convex shapes that are analyzed for potential vehicles. This analysis takes into consideration the convex shape of the objects and background information to merge or split the groupings. After a vehicle is identified, it is tracked using the similarity of color histograms on windows centered at the particle locations.

关键词： computer vision image processing particles clustering vehicle count vehicle tracking video processing

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Towards the applied hybrid model in decision making: Support the early diagnosis of type 2 diabetes

Towards the applied hybrid model in decision making: Support...

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3rd International Conference on Information Computing and Applications, ICICA 2012

作者： Menezes, Andrea Carvalho Pinheiro, Placido Rogerio Pinheiro, Mirian Caliope Dantas Cavalcante, Tarcísio Pequeno Graduate Program in Applied Informatics Av. Washington Soares 1321 - Bl J Sl 30 60.811-905 Fortaleza Brazil

ISBN: (纸本)9783642340611

A hybrid model, combining Bayesian network and a multicriteria method, is presented in order to assist with the decision making process about which questions would be more attractive to the definition of the diagnosis of Diabetes type 2. We have proposed the application of an expert system structured in probability rules and structured representations of knowledge in production rules and probabilities (Artificial Intelligence - AI). The importance of the early diagnosis associated with the appropriate treatment is to decrease the chance of developing the complications of diabetes, reducing the impact on our society. Diabetes is a group of metabolic diseases characterized by hyperglycemia resulting from defects in insulin secretion, insulin action, or both. © 2012 Springer-Verlag.

关键词： Expert systems

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Erratum: Large meta-analysis of genome-wide association studies identifies five loci for lean body mass

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Nature communications 2017年第1期8卷 1414页

作者： M Carola Zillikens Serkalem Demissie Yi-Hsiang Hsu Laura M Yerges-Armstrong Wen-Chi Chou Lisette Stolk Gregory Livshits Linda Broer Toby Johnson Daniel L Koller Zoltán Kutalik Jian'an Luan Ida Malkin Janina S Ried Albert V Smith Gudmar Thorleifsson Liesbeth Vandenput Jing Hua Zhao Weihua Zhang Ali Aghdassi Kristina Åkesson Najaf Amin Leslie J Baier Inês Barroso David A Bennett Lars Bertram Rainer Biffar Murielle Bochud Michael Boehnke Ingrid B Borecki Aron S Buchman Liisa Byberg Harry Campbell Natalia Campos Obanda Jane A Cauley Peggy M Cawthon Henna Cederberg Zhao Chen Nam H Cho Hyung Jin Choi Melina Claussnitzer Francis Collins Steven R Cummings Philip L De Jager Ilja Demuth Rosalie A M Dhonukshe-Rutten Luda Diatchenko Gudny Eiriksdottir Anke W Enneman Mike Erdos Johan G Eriksson Joel Eriksson Karol Estrada Daniel S Evans Mary F Feitosa Mao Fu Melissa Garcia Christian Gieger Thomas Girke Nicole L Glazer Harald Grallert Jagvir Grewal Bok-Ghee Han Robert L Hanson Caroline Hayward Albert Hofman Eric P Hoffman Georg Homuth Wen-Chi Hsueh Monica J Hubal Alan Hubbard Kim M Huffman Lise B Husted Thomas Illig Erik Ingelsson Till Ittermann John-Olov Jansson Joanne M Jordan Antti Jula Magnus Karlsson Kay-Tee Khaw Tuomas O Kilpeläinen Norman Klopp Jacqueline S L Kloth Heikki A Koistinen William E Kraus Stephen Kritchevsky Teemu Kuulasmaa Johanna Kuusisto Markku Laakso Jari Lahti Thomas Lang Bente L Langdahl Lenore J Launer Jong-Young Lee Markus M Lerch Joshua R Lewis Lars Lind Cecilia Lindgren Yongmei Liu Tian Liu Youfang Liu Östen Ljunggren Mattias Lorentzon Robert N Luben William Maixner Fiona E McGuigan Carolina Medina-Gomez Thomas Meitinger Håkan Melhus Dan Mellström Simon Melov Karl Michaëlsson Braxton D Mitchell Andrew P Morris Leif Mosekilde Anne Newman Carrie M Nielson Jeffrey R O'Connell Ben A Oostra Eric S Orwoll Aarno Palotie Stephen C J Parker Munro Peacock Markus Perola Annette Peters Ozren Polasek Richard L Prince Katri Räikkönen Stuart H Ralston Samuli Ripatti John A Robbins Jerome I Rotter Igor Rudan Veikko Department of Internal Medicine Erasmus MC Rotterdam 3000 The Netherlands. Netherlands Genomics Initiative (NGI)-sponsored Netherlands Consortium for Healthy Aging (NCHA) Leiden 2593 The Netherlands. Department of Biostatistics Boston University School of Public Health Boston MA 02118 USA. Hebrew SeniorLife Institute for Aging Research Roslindale MA 02131 USA. Harvard Medical School Boston MA 02115 USA. Molecular and Integrative Physiological Sciences Program Harvard School of Public Health Boston MA 02115 USA. Program in Personalized and Genomic Medicine and Department of Medicine Division of Endocrinology Diabetes and Nutrition University of Maryland School of Medicine Baltimore MD 21201 USA. Broad Institute Cambridge MA 02142 USA. Sackler Faculty of Medicine Department of Anatomy and Anthropology Tel Aviv University Tel Aviv 6997801 Israel. Department of Twin Research and Genetic Epidemiology King's College London St Thomas' Campus London WC2R 2LS UK. Department of Epidemiology Erasmus MC Rotterdam 3000 The Netherlands. Department of Medical Genetics University of Lausanne Lausanne 1011 Switzerland. Swiss Institute of Bioinformatics Lausanne 1015 Switzerland. Centre Hospitalier Universitaire (CHUV) University Institute for Social and Preventive Medicine Lausanne 1010 Switzerland. Department of Medical and Molecular Genetics Indiana University School of Medicine Indianapolis IN 46202 USA. MRC Epidemiology Unit University of Cambridge School of Clinical Medicine Cambridge Biomedical Campus Cambridge CB2 OQQ UK. Institute of Epidemiology II Helmholtz Zentrum München - German Research Center for Environmental Health Neuherberg 85764 Germany. Icelandic Heart Association Kopavogur 201 Iceland. Faculty of Medicine University of Iceland Reykjavik 101 Iceland. deCODE Genetics Reykjavik 101 Iceland. Department of Internal Medicine Institute of Medicine Sahlgrenska Academy University of Gothenburg Gothenburg SE-405 30 Sweden. Dep

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GWAS with AHP based SNP prioritization approach to identify SNP biomarkers for Alzheimer's disease

GWAS with AHP based SNP prioritization approach to identify ...

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2012 7th International Symposium on Health informatics and Bioinformatics, HIBIT 2012

作者： Kadioǧlu, Onat Üstünkar, Gürkan Son, Yeşim Aydin Middle East Technical University Bioinformatics Graduate Program Ankara Turkey Middle East Technical University Informatics Institute Department of Information Science Ankara Turkey Middle East Technical University Informatics Institute Department of Health Informatics Ankara Turkey

ISBN: (纸本)9781467308786

Genome wide association studies (GWAS) aim to identify genomic variance associated with certain disease conditions. Major bottleneck of standard GWAS approaches are the prioritization and subset selection after the statistically significant SNPs are determined. Our group has recently developed an analysis pipeline, where p-value and combined p value statistics are integrated with the novel AHP based SNP prioritization algorithm for the detailed analysis of associated SNPs considering statistical significance and biological relevance. Following this pipeline, we have done the GWAS of Alzheimer's Disease (AD) on ADNI SNP genotyping data set where 148 AD cases and 182 controls are investigated. Among the top 100 SNPs 18 of them mapped to AD linked genes. Additionally further analysis of the gene and pathway results suggested new associations, providing basis for new hypothesis for the AD Biomarker research. © 2012 IEEE.

关键词： Genes

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iSNP: An integrated, automatically updated SNP database

iSNP: An integrated, automatically updated SNP database

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2012 7th International Symposium on Health informatics and Bioinformatics, HIBIT 2012

作者： Çarkacioǧlu, Levent Gedikoǧlu, Ceyhun Son, Yeşim Aydin Bioinformatics Graduate Program Middle East Technical University 06800 Ankara Turkey Health Informatics Department Middle East Technical University 06800 Ankara Turkey

ISBN: (纸本)9781467308786

Single Nucleotide Polymorphisms (SNP) is a DNA sequence variation that occurs when a single nucleotide differs between members of a biological species or paired chromosomes in an individual. Studies on SNP data are important for scientists to shed light on identifying genetic variations underlying complex diseases. While recent advances in high-throughput genotyping technologies are resulting in data accumulation at large scales, the need for collection and service of this data under a standard format and globally normalized and structured metadata that houses the structured SNP data is becoming essential. Here, we present iSNP that is a regularly updated, machine curated database that holds SNP and its associated metadata from publicly available databases under a structured standard format that can be efficiently utilized within different applications. © 2012 IEEE.

关键词： Metadata

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Building Dicer1 regulation network of mouse liver hepatocytes

Building Dicer1 regulation network of mouse liver hepatocyte...

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2012 7th International Symposium on Health informatics and Bioinformatics, HIBIT 2012

作者： Ünsal, Şeyma Beyge, Mahmut Son, Yeşim Aydin Biotechnology Graduate Program Middle East Technical University 06800 Ankara Turkey Health Informatics Department Middle East Technical University 06800 Ankara Turkey

ISBN: (纸本)9781467308786

RNA induced gene silencing complex (RISC) has a role in many cellular processes which includes regulation of gene expression, immune response, cell differentiation and embryonic development. Dicer protein is a key regulator of these processes. Dicer1 specifically has central role in maturation of RISC substrate RNA and RISC assembly in mouse. Here the results of a microarray study that investigates the molecular level changes in dicer1 knockout mouse liver hepatocytes is re-analysed and the differentially regulated genes are hierarchically clustered based on molecular function and co-expression to construct the suggested regulation network of Dicer1 in mouse hepatocytes. © 2012 IEEE.

关键词： RNA

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Preventing surreptitious filming by saturation irradiation of infrared rays

Preventing surreptitious filming by saturation irradiation o...

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26th IEEE International Conference on Advanced Information Networking and Applications Workshops, WAINA 2012

作者： Murakami, Fumiaki Komoriya, Kenji Uda, Ryuya Gohshi, Seiichi Echizen, Isao Computer Science Program Tokyo University of Technology Graduate School Hachioji city Japan Kogakuin University Shinjuku ward Japan National Institute of Informatics Chiyoda ward Japan

ISBN: (纸本)9780769546520

There are two methods for detecting videos illegally recorded in theaters. One uses digital watermarks to identify on what dates and in what theaters such videos were recorded. The other method uses infrared light, which degrades such videos by using the difference between human and device sensitivities. However, neither method detects the act of recording a video. Therefore, these methods are not the best to prevent movies from being illegally recorded. Our previously proposed method uses reflected infrared light to identify places where surreptitious filming takes place (in this paper, we call a camera used for surreptitious filming a surreptitious filming camera (SFC)). This method focuses infrared light on places where surreptitious filming takes place and disrupts it. In addition, this method distinguishes camera lenses from other lenses, such as those for eyeglasses, to analyze the RGB of reflected infrared light. However, this method cannot capture reflected infrared light depending on a SFC's location and direction. As a result, we propose using a moving infrared detection camera (IDC) to solve these problems and a method for more effectively detecting reflected infrared light. © 2012 IEEE.

关键词： Infrared radiation

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Initial explorations on using CRFs for turkish named entity recognition

Initial explorations on using CRFs for turkish named entity ...

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24th International Conference on Computational Linguistics, COLING 2012

作者： Şseker, Gökhan Akin Eryǐgit, Güļsen ITU Informatics Institute Graduate Program in Computer Science Istanbul Technical University Istanbul 34469 Turkey Department of Computer Engineering Istanbul Technical University Istanbul 34469 Turkey

This paper reports the highest results (95% in MUC and 92% in CoNLL metric) in the literature for Turkish named entity recognition;more specifically for the task of detecting person, location and organization entities in general news texts. We give an in depth analysis of the previous reported results and make comparisons with them whenever possible. We use conditional random fields (CRFs) as our statistical model. The paper presents initial explorations on the usage of rich morphological structure of the Turkish language as features to CRFs together with the use of some basic and generative gazetteers. © 2012 The COLING.

关键词： Random processes

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Feasibility study of using social networks platform for learning support: An example of Facebook

Feasibility study of using social networks platform for lear...

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20th International Conference on Computers in Education, ICCE 2012

作者： Chan, Chien-Lung Fu, Wen-Erh Lai, K. Robert Tseng, Shu-Fen Department of Information Management Yuan Ze University Taiwan Department of Computer Science and Engineering Yuan Ze University Taiwan Graduate Program in Social Informatics Yuan Ze University Taiwan

ISBN: (纸本)9789810746490

In this study, we explored the students' computer-supported collaborative learning behavior based on the Facebook platform. Sixty two senior college students major in Information Management took Decision Support System (DSS) class. Besides the lectures and class discussion, the students participated in the DSS Facebook for collaborative learning. We found that students' characteristics (e.g., gender and mindset of learning) are important factors to affect their Facebook usage behavior and learning performance. The students using DSS Facebook more often get better performance in their final projects, learning satisfaction and the online communication behavior survey. We also found that gender affects the usage of social networks platform. For instance, male students use social networks platform several times per week and get better performance in online communication, learning satisfaction and creativity self-efficacy.

关键词： Decision support systems

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