Results for 'Balaji Mungall'

33 found
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  1. Ontologies as Integrative Tools for Plant Science.Ramona Walls, Balaji Athreya, Laurel Cooper, Justin Elser, Maria A. Gandolfo, Pankaj Jaiswal, Christopher J. Mungall, Justin Preece, Stefan Rensing, Barry Smith & Dennis W. Stevenson - 2012 - American Journal of Botany 99 (8):1263–1275.
    Bio-ontologies are essential tools for accessing and analyzing the rapidly growing pool of plant genomic and phenomic data. Ontologies provide structured vocabularies to support consistent aggregation of data and a semantic framework for automated analyses and reasoning. They are a key component of the Semantic Web. This paper provides background on what bio-ontologies are, why they are relevant to botany, and the principles of ontology development. It includes an overview of ontologies and related resources that are relevant to plant science, (...)
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  2. The Plant Ontology as a tool for comparative plant anatomy and genomic analyses.Cooper Laurel, Walls Ramona, L. Elser, Justin Gandolfo, A. Maria, Stevenson Dennis, W. Smith, Barry Preece, Justin Athreya, Balaji Mungall, J. Christopher, Rensing Stefan & Others - 2012 - Plant and Cell Physiology.
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  3.  21
    Towards a unified framework for developing ethical and practical Turing tests.Balaji Srinivasan & Kushal Shah - 2019 - AI and Society 34 (1):145-152.
    Since Turing proposed the first test of intelligence, several modifications have been proposed with the aim of making Turing’s proposal more realistic and applicable in the search for artificial intelligence. In the modern context, it turns out that some of these definitions of intelligence and the corresponding tests merely measure computational power. Furthermore, in the framework of the original Turing test, for a system to prove itself to be intelligent, a certain amount of deceit is implicitly required which can have (...)
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  4.  9
    Intercellular Signaling During Floral Development.Balaji Enugutti & Kay Schneitz - 2012 - In Witzany & Baluska (eds.), Biocommunication of Plants. Springer. pp. 123--137.
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  5.  7
    The Roots of Ophidian Symbolism.Balaji Mundkur - 1978 - Ethos: Journal of the Society for Psychological Anthropology 6 (3):125-158.
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  6.  35
    Ubiquitylation Pathways In Insulin Signaling and Organismal Homeostasis.Vishnu Balaji, Wojciech Pokrzywa & Thorsten Hoppe - 2018 - Bioessays 40 (5):1700223.
  7.  4
    Michael Neu, "Just Liberal Violence: Sweatshops, Torture, War.".Ridhiman Balaji - 2021 - Philosophy in Review 41 (2):83-85.
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  8.  11
    The two faces of short‐range evolutionary dynamics of regulatory modes in bacterial transcriptional regulatory networks.S. Balaji & L. Aravind - 2007 - Bioessays 29 (7):625-629.
  9.  29
    Mapping the Intellectual Structure of Social Entrepreneurship Research: A Citation/Co-citation Analysis.Pradeep Kumar Hota, Balaji Subramanian & Gopalakrishnan Narayanamurthy - 2020 - Journal of Business Ethics 166 (1):89-114.
    In this paper, we employ bibliometric analysis to empirically analyse the research on social entrepreneurship published between 1996 and 2017. By employing methods of citation analysis, document co-citation analysis, and social network analysis, we analyse 1296 papers containing 74,237 cited references and uncover the structure, or intellectual base, of research on social entrepreneurship. We identify nine distinct clusters of social entrepreneurship research that depict the intellectual structure of the field. The results provide an overall perspective of the social entrepreneurship field, (...)
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  10.  6
    The Cult of the Serpent: An Interdisciplinary Survey of Its Manifestations and Origins.Kenneth G. Zysk & Balaji Mundkar - 1984 - Journal of the American Oriental Society 104 (3):605.
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  11.  9
    Decreased Modulation of EEG Oscillations in High-Functioning Autism during a Motor Control Task.Joshua B. Ewen, Balaji M. Lakshmanan, Ajay S. Pillai, Danielle McAuliffe, Carrie Nettles, Mark Hallett, Nathan E. Crone & Stewart H. Mostofsky - 2016 - Frontiers in Human Neuroscience 10.
  12.  80
    The OBO Foundry: Coordinated evolution of ontologies to support biomedical data integration.Barry Smith, Michael Ashburner, Cornelius Rosse, Jonathan Bard, William Bug, Werner Ceusters, Louis J. Goldberg, Karen Eilbeck, Amelia Ireland, Christopher J. Mungall, Neocles Leontis, Philippe Rocca-Serra, Alan Ruttenberg, Susanna-Assunta Sansone, Richard H. Scheuermann, Nigam Shah, Patricia L. Whetzel & Suzanna Lewis - 2007 - Nature Biotechnology 25 (11):1251-1255.
    The value of any kind of data is greatly enhanced when it exists in a form that allows it to be integrated with other data. One approach to integration is through the annotation of multiple bodies of data using common controlled vocabularies or ‘ontologies’. Unfortunately, the very success of this approach has led to a proliferation of ontologies which itself creates obstacles to integration. The Open Biomedical Ontologies (OBO) consortium has set in train a strategy to overcome this problem. Existing (...)
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  13.  12
    Nilanjan Ghosh, Pranab Mukhopadhyay, Amita Shah and Manoj Panda: Nature, Economy and Society: Understanding the Linkages: Springer, India, x + 357 pp, ISBN: 9788132224037.S. Suresh Ramanan & S. Balaji - 2018 - Journal of Agricultural and Environmental Ethics 31 (3):405-407.
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  14. Relations in Biomedical Ontologies.Barry Smith, Werner Ceusters, Bert Klagges, Jacob Köhler, Anand Kuma, Jane Lomax, Chris Mungall, , Fabian Neuhaus, Alan Rector & Cornelius Rosse - 2005 - Genome Biology 6 (5):R46.
    To enhance the treatment of relations in biomedical ontologies we advance a methodology for providing consistent and unambiguous formal definitions of the relational expressions used in such ontologies in a way designed to assist developers and users in avoiding errors in coding and annotation. The resulting Relation Ontology can promote interoperability of ontologies and support new types of automated reasoning about the spatial and temporal dimensions of biological and medical phenomena.
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  15. Identity dynamics, action and context.Qing-Yin Wang, Balaji Manicassamy, Xuemei Yu, Klavs Dolmer, Peter G. W. Gettins & Lijun Rong - forthcoming - Journal for the Theory of Social Behaviour.
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  16. Cox, J Mungall I eds, Rural healthcare.M. Walsh - 2000 - Nursing Ethics 7 (2):173-173.
     
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  17. OBO Foundry in 2021: Operationalizing Open Data Principles to Evaluate Ontologies.Rebecca C. Jackson, Nicolas Matentzoglu, James A. Overton, Randi Vita, James P. Balhoff, Pier Luigi Buttigieg, Seth Carbon, Melanie Courtot, Alexander D. Diehl, Damion Dooley, William Duncan, Nomi L. Harris, Melissa A. Haendel, Suzanna E. Lewis, Darren A. Natale, David Osumi-Sutherland, Alan Ruttenberg, Lynn M. Schriml, Barry Smith, Christian J. Stoeckert, Nicole A. Vasilevsky, Ramona L. Walls, Jie Zheng, Christopher J. Mungall & Bjoern Peters - 2021 - BioaRxiv.
    Biological ontologies are used to organize, curate, and interpret the vast quantities of data arising from biological experiments. While this works well when using a single ontology, integrating multiple ontologies can be problematic, as they are developed independently, which can lead to incompatibilities. The Open Biological and Biomedical Ontologies Foundry was created to address this by facilitating the development, harmonization, application, and sharing of ontologies, guided by a set of overarching principles. One challenge in reaching these goals was that the (...)
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  18. The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics.Laurel Cooper, Austin Meier, Marie-Angélique Laporte, Justin L. Elser, Chris Mungall, Brandon T. Sinn, Dario Cavaliere, Seth Carbon, Nathan A. Dunn, Barry Smith, Botong Qu, Justin Preece, Eugene Zhang, Sinisa Todorovic, Georgios Gkoutos, John H. Doonan, Dennis W. Stevenson, Elizabeth Arnaud & Pankaj Jaiswal - 2018 - Nucleic Acids Research 46 (D1):D1168–D1180.
    The Planteome project provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics data. The reference ontologies include the Plant Ontology, Plant Trait Ontology, and the Plant Experimental Conditions Ontology developed by the Planteome project, along with the Gene Ontology, Chemical Entities of Biological Interest, Phenotype and Attribute Ontology, and others. The project also provides (...)
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  19.  20
    The RNA Ontology (RNAO): an ontology for integrating RNA sequence and structure data.Robert Hoehndorf, Colin Batchelor, Thomas Bittner, Michel Dumontier, Karen Eilbeck, Rob Knight, Chris J. Mungall, Jane S. Richardson, Jesse Stombaugh & Eric Westhof - 2011 - Applied ontology 6 (1):53-89.
  20. Survey-based naming conventions for use in OBO Foundry ontology development.Schober Daniel, Barry Smith, Lewis Suzanna, E. Kusnierczyk, Waclaw Lomax, Jane Mungall, Chris Taylor, F. Chris, Rocca-Serra Philippe & Sansone Susanna-Assunta - 2009 - BMC Bioinformatics 10 (1):125.
    A wide variety of ontologies relevant to the biological and medical domains are available through the OBO Foundry portal, and their number is growing rapidly. Integration of these ontologies, while requiring considerable effort, is extremely desirable. However, heterogeneities in format and style pose serious obstacles to such integration. In particular, inconsistencies in naming conventions can impair the readability and navigability of ontology class hierarchies, and hinder their alignment and integration. While other sources of diversity are tremendously complex and challenging, agreeing (...)
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  21. VO: Vaccine Ontology.Yongqun He, Lindsay Cowell, Alexander D. Diehl, H. L. Mobley, Bjoern Peters, Alan Ruttenberg, Richard H. Scheuermann, Ryan R. Brinkman, Melanie Courtot, Chris Mungall, Barry Smith & Others - 2009 - In ICBO 2009: Proceedings of the First International Conference on Biomedical Ontology. Buffalo:
    Vaccine research, as well as the development, testing, clinical trials, and commercial uses of vaccines involve complex processes with various biological data that include gene and protein expression, analysis of molecular and cellular interactions, study of tissue and whole body responses, and extensive epidemiological modeling. Although many data resources are available to meet different aspects of vaccine needs, it remains a challenge how we are to standardize vaccine annotation, integrate data about varied vaccine types and resources, and support advanced vaccine (...)
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  22. The Environment Ontology: Contextualising biological and biomedical entities.Pier Luigi Buttigieg, Norman Morrison, Barry Smith, Christopher J. Mungall & Suzanna E. Lewis - 2013 - Journal of Biomedical Semantics 4 (43):1-9.
    As biological and biomedical research increasingly reference the environmental context of the biological entities under study, the need for formalisation and standardisation of environment descriptors is growing. The Environment Ontology (ENVO) is a community-led, open project which seeks to provide an ontology for specifying a wide range of environments relevant to multiple life science disciplines and, through an open participation model, to accommodate the terminological requirements of all those needing to annotate data using ontology classes. This paper summarises ENVO’s motivation, (...)
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  23. National Center for Biomedical Ontology: Advancing biomedicine through structured organization of scientific knowledge.Daniel L. Rubin, Suzanna E. Lewis, Chris J. Mungall, Misra Sima, Westerfield Monte, Ashburner Michael, Christopher G. Chute, Ida Sim, Harold Solbrig, M. A. Storey, Barry Smith, John D. Richter, Natasha Noy & Mark A. Musen - 2006 - Omics: A Journal of Integrative Biology 10 (2):185-198.
    The National Center for Biomedical Ontology is a consortium that comprises leading informaticians, biologists, clinicians, and ontologists, funded by the National Institutes of Health (NIH) Roadmap, to develop innovative technology and methods that allow scientists to record, manage, and disseminate biomedical information and knowledge in machine-processable form. The goals of the Center are (1) to help unify the divergent and isolated efforts in ontology development by promoting high quality open-source, standards-based tools to create, manage, and use ontologies, (2) to create (...)
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  24. An improved ontological representation of dendritic cells as a paradigm for all cell types.Anna Maria Masci, Cecilia N. Arighi, Alexander D. Diehl, Anne E. Liebermann, Chris Mungall, Richard H. Scheuermann, Barry Smith & Lindsay Cowell - 2009 - BMC Bioinformatics 10 (1):70.
  25. CARO: The Common Anatomy Reference Ontology.Melissa Haendel, Fabian Neuhaus, David Osumi-Sutherland, Paula M. Mabee, José L. V. Mejino Jr, Chris J. Mungall & Barry Smith - 2008 - In Anatomy Ontologies for Bioinformatics: Principles and Practice. Springer. pp. 327-349.
    The Common Anatomy Reference Ontology (CARO) is being developed to facilitate interoperability between existing anatomy ontologies for different species, and will provide a template for building new anatomy ontologies. CARO has a structural axis of classification based on the top-level nodes of the Foundational Model of Anatomy. CARO will complement the developmental process sub-ontology of the GO Biological Process ontology, using it to ensure the coherent treatment of developmental stages, and to provide a common framework for the model organism communities (...)
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  26. An improved ontological representation of dendritic cells as a paradigm for all cell types.Masci Anna Maria, N. Arighi Cecilia, D. Diehl Alexander, E. Lieberman Anne, Mungall Chris, H. Scheuermann Richard, Barry Smith & G. Cowell Lindsay - 2009 - BMC Bioinformatics 10 (1):70.
    The Cell Ontology (CL) is designed to provide a standardized representation of cell types for data annotation. Currently, the CL employs multiple is_a relations, defining cell types in terms of histological, functional, and lineage properties, and the majority of definitions are written with sufficient generality to hold across multiple species. This approach limits the CL’s utility for cross-species data integration. To address this problem, we developed a method for the ontological representation of cells and applied this method to develop a (...)
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  27.  30
    A process model for information retrieval context learning and knowledge discovery.Harvey Hyman, Terry Sincich, Rick Will, Manish Agrawal, Balaji Padmanabhan & Warren Fridy - 2015 - Artificial Intelligence and Law 23 (2):103-132.
    In this paper we take a fresh look at the information retrieval problem of balancing recall with precision in electronic document extraction. We examine the IR constructs of uncertainty, context and relevance, proposing a new process model for context learning, and introducing a new IT artifact designed to support user driven learning by leveraging explicit knowledge to discover implicit knowledge within a corpus of documents. The IT artifact is a prototype designed to present a small set of extracted documents from (...)
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  28. CARO: The Common Anatomy Reference Ontology.Haendel Melissa, A. Neuhaus, Fabian Osumi-Sutherland, David Mabee, M. Paula, L. V. MejinoJosé, Mungall Chris, J. Smith & Barry - 2008 - In Anatomy Ontologies for Bioinformatics: Principles and Practice. Springer. pp. 327--349.
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  29.  12
    Graph-Based Bootstrapping for Coreference Resolution.P. Ranjani, T. V. Geetha & J. Balaji - 2014 - Journal of Intelligent Systems 23 (3):293-310.
    Coreference resolution is a challenging natural language processing task, and it is difficult to identify the correct mentions of an entity that can be any noun or noun phrase. In this article, a semisupervised, two-stage pattern-based bootstrapping approach is proposed for the coreference resolution task. During Stage 1, the possible mentions are identified using word-based features, and during Stage 2, the correct mentions are identified by filtering the non-coreferents of an entity using statistical measures and graph-based features. Whereas the existing (...)
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  30. The Plant Ontology facilitates comparisons of plant development stages across species.Ramona Lynn Walls, Laurel Cooper, Justin Lee Elser, Maria Alejandra Gandolfo, Christopher J. Mungall, Barry Smith, Dennis William Stevenson & Pankaj Jaiswal - 2019 - Frontiers in Plant Science 10.
    The Plant Ontology (PO) is a community resource consisting of standardized terms, definitions, and logical relations describing plant structures and development stages, augmented by a large database of annotations from genomic and phenomic studies. This paper describes the structure of the ontology and the design principles we used in constructing PO terms for plant development stages. It also provides details of the methodology and rationale behind our revision and expansion of the PO to cover development stages for all plants, particularly (...)
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  31.  6
    Practicing Novel, Praxis-Like Movements: Physiological Effects of Repetition.Joshua B. Ewen, Ajay S. Pillai, Danielle McAuliffe, Balaji M. Lakshmanan, Katarina Ament, Mark Hallett, Nathan E. Crone & Stewart H. Mostofsky - 2016 - Frontiers in Human Neuroscience 10.
  32. The Plant Ontology: A common reference ontology for plants.L. Walls Ramona, D. Cooper Laurel, Elser Justin, W. Stevenson Dennis, Barry Smith, Mungall Chris, A. Gandolfo Maria & Jaiswal Pankaj - 2010 - In Proceedings of the Workshop on Bio-Ontologies, ISMB, Boston, July, 2010.
    The Plant Ontology (PO) (http://www.plantontology.org) (Jaiswal et al., 2005; Avraham et al., 2008) was designed to facilitate cross-database querying and to foster consistent use of plant-specific terminology in annotation. As new data are generated from the ever-expanding list of plant genome projects, the need for a consistent, cross-taxon vocabulary has grown. To meet this need, the PO is being expanded to represent all plants. This is the first ontology designed to encompass anatomical structures as well as growth and developmental stages (...)
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  33. Proceedings of the Workshop on Bio-Ontologies, ISMB, Boston, July, 2010.L. Walls Ramona, D. Cooper Laurel, Justin Elser, W. Stevenson Dennis, Smith Barry, Chris Mungall, A. Gandolfo Maria & Pankaj Jaiswal - 2010
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