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A system for knowledge management in bioinformatics

Sudeshna Adak, Vishal S. Batra, Deo N. Bhardwaj, P. V. Kamesam, Pankaj Kankar, Manish P. Kurhekar, Biplav Srivastava
2002 Proceedings of the eleventh international conference on Information and knowledge management - CIKM '02  
We address this problem in a comprehensive system for knowledge management in bioinformatics called e2e.  ...  We have implemented an e2e prototype that enables a biologist to analyze her gene expression data in GEML or from a public site like Stanford, and discover knowledge through operations like querying on  ...  To the stated end, we describe a comprehensive system for knowledge management in bioinformatics called e2e (see Figure 1 ) in which data generated by the biochip experiments can be cross-referenced and  ... 
doi:10.1145/584792.584905 dblp:conf/cikm/AdakBBKKKS02 fatcat:ueh36lhoeng6zpsvzqbayn56sq

Collaborative Integration of Bioinformatics Knowledge Management System and Mobile Wireless Devices

Fahad Omar Alomary .
2018 Transactions on Machine Learning and Artificial Intelligence  
Knowledge Management System (KMS) currently becomes a common medium to distribute knowledge by using the Information Technology (IT) as enabler tools for everyone to reach, share with among the members  ...  Knowledge Management (KM) has been a buzzword in a range of subject disciplines for many years, and has latterly been applied to higher learning institution.  ...  Conclusion As a conclusion, it seems that Bioinformatics Knowledge Management System could be implemented in the bioinformatics institution with the base of knowledge management framework that has been  ... 
doi:10.14738/tmlai.72.6203 fatcat:y6g7vijivrgw5gjrpaun752eau

Evolving from Bioinformatics in-the-Small to Bioinformatics in-the-Large

D. Stott Parker, Michael M. Gorlick, Christopher J. Lee
2003 Omics  
for developing bioinformatics database systems.  ...  The popular make utility is a very effective system for defining and maintaining simple dependencies, and it offers a number of insights about the essence of bioinformatics in-the-large.  ...  good sketch of a system for managing knowledge maps.  ... 
doi:10.1089/153623103322006580 pmid:12831555 fatcat:fkek5r75fnh3hhweboa4557rn4

Technical Perspectives on Knowledge Management in Bioinformatics Workflow Systems

Walaa N., M.Sabih Aksoy
2015 International Journal of Advanced Computer Science and Applications  
This article focuses on the knowledge management of in silico experimentation in bioinformatics workflow systems.  ...  Thus the management of knowledge is therefore an important issue for life scientists.  ...  Section III, discussed knowledge management efforts in Bioinformatics workflow systems and presents the knowledge management life cycle in bioinformatics workflow systems.  ... 
doi:10.14569/ijacsa.2015.060126 fatcat:wskynuwvzvfijb4cymmpu4to4e

Using provenance to manage knowledge of In Silico experiments

R. Stevens, J. Zhao, C. Goble
2007 Briefings in Bioinformatics  
This article offers a briefing in one of the knowledge management issues of in silico experimentation in bioinformatics.  ...  In Silico experimental protocols should themselves be a form of managing the knowledge of how to perform bioinformatics analyses.  ...  J.Z's work is supported by a studentship from the UK e-Science programme EPSRC grant GR/R67743.  ... 
doi:10.1093/bib/bbm015 pmid:17502335 fatcat:folt4biql5db7c5plbppukrrli

A Notification System Model for Bioinformatics Community of Practice

Rusli Abdullah, Norhashimi Mohd Nor, Amir Mohamed Talib
2010 Computer and Information Science  
Whilst the knowledge management system (KMS) provides a sturdy basic for the Bioinformatics portal as a whole, the agent technology support the operation of the notification system.  ...  The objective of this project is to build a notification system for Bioinformatics community of practice (CoP).  ...  It can be defined as knowledge of biological data from computer analysis and obviously it needs a proper system that can manage the massive knowledge.  ... 
doi:10.5539/cis.v3n2p191 fatcat:fux57qcep5ax5jaztmi5ydccgy

Towards Clinical Bioinformatics: Advancing Genomic Medicine with Informatics Methods and Tools

E. Ammenwerth, R. Brandner, B. Brigl, G. Fischer, S. Garde, E. Lang, R. Pilgram, F. Ruderich, R. Singer, A. C. Wolff, R. Haux, C. Kulikowski (+1 others)
2004 Methods of Information in Medicine  
Further review papers deal with public health implications of bioinformatics, knowledge management and trends in health care education.  ...  Integrated data and knowledge resources are generally regarded to be central and key issues for clinical bioinformatics.  ...  for knowledge management and decision support.  ... 
doi:10.1055/s-0038-1633872 pmid:15227561 fatcat:2lwoet3eizgpvkrx4hyjfmopze

Bioinformatics Knowledge Transmission (training, learning, and teaching): overview and flexible comparison of computer based training approaches [article]

Etienne Z. Gnimpieba, Douglas Jennewein, Luke Fuhrman, Carol M. Lushbough
2013 arXiv   pre-print
When selecting the best of these tools, called here BKTMS (Bioinformatics Knowledge Transmission Management Systems), there may be confusion. What makes a good BKTMS?  ...  This review and evaluation will be used to gain insight into the tools, systems, and capabilities that will be added to or excluded from a new proposed model for the next generation of BKTMS, involving  ...  Doug Goodman and Jerry Prentice for their helpful corrections on this work.  ... 
arXiv:1310.8383v1 fatcat:swxgzxnavzanph7uiahzreqfx4

Bioinformatics Curriculum Guidelines: Toward a Definition of Core Competencies

Lonnie Welch, Fran Lewitter, Russell Schwartz, Cath Brooksbank, Predrag Radivojac, Bruno Gaeta, Maria Victoria Schneider
2014 PLoS Computational Biology  
Emrich, Murlidharan Nair, Shifra Ben-Dor, and Erich Baker for their contributions to the working group that surveyed existing bioinformatics curricula; and to Jenny Cham and Mary Todd Bergman for assistance  ...  Acknowledgments The authors express appreciation to Murli Nair for helping to summarize career opportunities; to Erik Bongcam-Rudloff, Celia van Gelder, Antoine H. C. van Kampen, Scott J.  ...  A persona for a representative ''bioinformatics engineer'' is provided in Figure 4 .  ... 
doi:10.1371/journal.pcbi.1003496 pmid:24603430 pmcid:PMC3945096 fatcat:2q7uagjbkvfqfkv2bc2wyerbce

The role of parallelism, web services and ontologies in bioinformatics and omics data management and analysis

Mario Cannataro, Pietro Hiram Guzzi
2013 EMBnet journal  
This paper presents an overview of how parallelism, service orientation, and knowledge management techniques can be used to face those challenges presenting some recent bioinformatics tools and projects  ...  that employ such technologies in different stages of the bioinformatics analysis's pipeline.  ...  Knowledge management techniques and especially ontologies are more and more used to model pre-existing knowledge in medicine and biology.  ... 
doi:10.14806/ej.19.b.731 fatcat:i3tffcagufhd5ijk5cq5enzwxe

HEALTHCARE INFORMATION SYSTEMS: A PEDAGOGICAL ANALYSIS OF CURRENT DEGREE PROGRAMS

2010 Issues in Information Systems  
It is expected that universities planning to offer degree programs in healthcare information systems can use these themes as the fundamental basis for developing a structure of their own degree program  ...  This research provides a pedagogical analysis of the current healthcare information systems degree programs from various U.S. universities and classifies the coursework offered in these universities into  ...  Fundamental knowledge of bioinformatics is essential for courses in this theme, however programming skills and access to a database plays a key role.  ... 
doi:10.48009/2_iis_2010_176-183 fatcat:ukktg5s7dzgvzo6fz3vtqzvfbi

Trends in life science grid: from computing grid to knowledge grid

Akihiko Konagaya
2006 BMC Bioinformatics  
work together, create knowledge, and share knowledge and experiences in a community.  ...  Data grid technologies are strong candidates for realizing "resourceome" for bioinformatics.  ...  Acknowledgements The authors express special thanks for the member of the Open Bioinformatics Grid project and anonymous reviewers for their valuable discussion and useful comments for this manuscript.  ... 
doi:10.1186/1471-2105-7-s5-s10 pmid:17254294 pmcid:PMC1764466 fatcat:tlemqfzeljfdbaxa6gw5mid7f4

Biomedical and Health Informatics Education and Research at the Information Technology Institute in Egypt

A. Khalifa, R. Hussein
2011 IMIA Yearbook of Medical Informatics  
The ITI BMHI research projects tackle a wide-range of current chal- lenges in this field, such as knowledge management in healthcare, providing tele-consultation services for diagnosis and treatment of  ...  SummaryDuring the last decade, Egypt has experienced a revolution in the field of Information and Communication Technology (ICT) that has had a corresponding impact on the field of healthcare.Since 1993  ...  However, the WHO reported that there was a strong need for orientation on both eHealth and eLearning technologies in addition to training in the development and management of eHealth systems [2] .  ... 
doi:10.1055/s-0038-1638756 fatcat:ixgfxx6khnczvh5h2avdmft2xm

Critical technologies for bioinformatics

V. Brusic, S. Ranganathan
2008 Briefings in Bioinformatics  
This system offers a formal description of objects, processes and relations necessary for conceptualization of knowledge in molecular immunogenetics and provides tools for multi-scale approaches at various  ...  It offers a convenient means for managing data from local files and web repositories, for statistical analysis of data, and visualization of results.  ... 
doi:10.1093/bib/bbn025 pmid:18499720 fatcat:czsclzqf2raj7dzfuvqt2u7i4u

Platform for EpiGenomic Research (PEGR): A flexible management platform for reproducible epigenomic and genomic research

Danying Shao, Gretta Kellogg, Ali Nematbakhsh, Prashant Kuntala, Shaun Mahony, B Frank Pugh, William Lai
2021 Zenodo  
To our knowledge, there are no free open-source platforms that manage entire experimental pipelines, from wet-bench experiments to bioinformatic analyses.  ...  Laboratory information management systems (LIMS) typically focus on inventory m [...]  ...  We developed the Platform for Epigenomic and Genomic Research (PEGR), a web-based project management platform that integrates wet-bench sample tracking with downstream bioinformatic workflows (managed  ... 
doi:10.5281/zenodo.5570116 fatcat:owpo7qbgxnfb7bh4hlmid2bvdy
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