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From: Pascale G. <Pas...@is...> - 2014-11-21 22:03:17
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Ray F. <ray...@st...> - 2014-09-11 20:47:14
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Catia P. <cpe...@di...> - 2014-09-03 21:36:11
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Adrian P. <pa...@in...> - 2014-08-29 16:40:10
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Ray F. <ray...@st...> - 2014-08-27 00:22:42
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Mark M. <mu...@st...> - 2014-08-11 07:35:20
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: seljamar <sel...@bu...> - 2014-07-30 18:42:22
|
Apologies for cross-posting Please forward this message to colleagues in the areas of interest NEW EXTENDED DEADLINE: August 15, 2014 Second International Workshop on Definitions in Ontologies (IWOOD 2014) at the International Conference on Biomedical Ontologies (ICBO 2014) October 6-7, 2014 Houston, USA Website: https://sites.google.com/site/definitionsinontologies/ This workshop is a follow-up to the workshop on Definitions in Ontologies (DO 2013) held last year in Montreal in conjunction with ICBO 2013. The focus of this second workshop is on definition practices in either human or machine-assisted ontology development. PRESENTATION A current problem in ontology development is constructing the needed definitions of terms either logical or in natural language. For example, ontologies built using OBO Foundry principles are advised to include both logical and natural language definitions, but ontology developers too often focus on only one of these, or they pay insufficient attention to whether they are equivalent. Explicit definitions of terms in ontologies serve a number of purposes. Logical definitions allow reasoners to create inferred hierarchies, lessening the burden of asserting and checking the validity of subsumptions. Natural language definitions help to ameliorate the pervasive problem of low inter-annotator agreement. In specialized domains, experts will know their own field well, but may only have limited knowledge of adjacent disciplines. Good definitions make it possible for non-experts to understand unfamiliar terms and thereby make it possible for more confident reuse of terms by external ontologies, which in turn facilitates data integration. The goal of this workshop is to bring together interested researchers and developers to explore these issues by presenting case studies in a biomedical domain discussing the difficulties that arise when constructing definitions with a view to sharing strategies in the future. Even in the seemingly narrow domain of definition construction, cross-fertilization from related disciplines should yield benefits in quality and help to identify novel approaches. Papers submitted should include one or more case studies and raise specific questions related to definitions with a link to a biomedical domain. Reports on successful or unsuccessful methods are both appropriate. TOPICS -experiences in formulating definitions -tools that assist in definition editing, including collaborative systems -coordination of logical and textual definitions -validation and quality control of definitions, e.g., checking that definitions comply with the all/some form -methods for constructing definitions from multiple sources -use of controlled languages such as Rabbit or ACE for more user-friendly logical definition creation -use of templates to systematize definition creation FORMAT AND OUTCOMES This will be a half-day workshop with a selected mix of presentations based on accepted papers. In order to promote discussion, each presentation will be followed by a short response by a participant of the workshop to be arranged in advance of the workshop. This workshop will document findings on the workshop’s website (https://sites.google.com/site/definitionsinontologies/). We expect accepted papers to be published in the Journal of Biomedical Semantics (JBS). INTENDED AUDIENCE -ontologists, tool developers, and domain experts whose work encounters issues regarding definitions -tool developers building definition- or ontology-authoring tools -philosophers and logicians -biomedical researchers working on definitions in nomenclatures such as SNOMED -computer scientists addressing these issues in languages like OWL -NLP researchers working on definition extraction, generation, or checking -NLP/IR researchers reusing definitions produced for ontologies SUBMISSIONS All papers should include one or more case studies and raise specific questions related to definitions with a link to a biomedical domain. Papers should be between 5 and 10 pages long (rendered), excluding references, formatted using the JBS templates at http://www.jbiomedsem.com/authors/instructions/research#preparing-main-manuscript, and submitted via EasyChair (https://www.easychair.org/conferences/?conf=do2014). IMPORTANT DATES Workshop paper submission: August 15, 2014 Notification of paper acceptance: September 1, 2014 Camera-ready copies for the proceedings: September 15, 2014 Workshops: October 6-7, 2014 ORGANIZING COMMITTEE Selja Seppälä (University at Buffalo, USA) Patrick Ray (University at Buffalo, USA) Alan Ruttenberg (University at Buffalo, USA) PROGRAM COMMITTEE Nathalie Aussenac-Gilles (National Center for Scientific Research (CNRS), France) Mélanie Courtot (MBB Department Simon Fraser University and BC Public Health Microbiology & Reference Laboratory, Canada) Natalia Grabar (Université de Lille 3, France) Janna Hastings (European Bioinformatics Institute, Cambridge, UK) James Malone (European Bioinformatics Institute, Cambridge, UK) Alexis Nasr (Aix Marseille Université, France) Richard Power (The Open University, UK) Allan Third (The Open University, UK) SUPPORTED BY The Swiss National Science Foundation (SNSF) The State University of New York at Buffalo _______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Adrian P. <pa...@in...> - 2014-07-18 21:48:33
|
Call for contributions 7th International Workshop on Semantic Web Applications and Tools for the Life Sciences (SWAT4LS 2014) Berlin, Germany Dec. 9-10th, 2014 http://www.swat4ls.org/workshops/berlin2014 ************************ Overview Since 2008, the SWAT4LS Workshop has provided a platform for the presentation and discussion of the benefits and limits of applying web-based information systems and semantic technologies in the domains of health care and life sciences. SWAT4LS has been held in Edinburgh (2008), Amsterdam (2009), Berlin (2010), London (2011), Paris (2012) and Edinburgh (2013). The next edition of SWAT4LS will be held in Berlin, Germany, on December 9 - 11, 2014. It will be articulated in a tutorials day (9th), a main workshop day (10th) and an hackathon day (11th). We are confident that the next edition of SWAT4LS will provide the same open and stimulating environment that has previously brought together researchers, developers, and users, from various fields including eHealth, biomedical and clinical informatics, radiation oncology, systems biology, computational biology, drug discovery, bioinformatics and biocomputing, to discuss goals, current limits and real experiences with Semantic Web and Linked Data technologies in health care and the life sciences. ________________________________________ Rationale The Web is a key medium for information publishing, and Web-based information systems play a key role in biomedical information exchange and data integration. The Semantic Web in particular provides a set of interoperable standards and technologies that support knowledge representation, ontology development, machine reasoning, data mining, machine learning, distributed information resources, and collaborative research environments. The variety and complexity of biomedical information requires these kind of technologies and altogether, the adoption of the Web-based semantic technologies in health care and the life sciences is having an impact on publishing, as well as biological and clinical research. This workshop will provide a venue to present and discuss the benefits and limits of adoption of these technologies. It will showcase experiences, information resources, tool development and applications. It will bring together researchers, both developers and users, from biology, bioinformatics, computer science, and the clinic to discuss goals, current limits and use cases for Semantic Web technologies. ________________________________________ Topics Topics of interest include, but are not limited to: - Semantic interoperability of Electronic Health Records (EHRs) and clinical trial data - Connecting clinical practice and clinical research - Rapid Learning infrastructures for health care - Enabling translational medicine and personalized medicine - Interactive Knowledge Browsing and Semantic Web approaches to Big Metadata - Harnessing biomedical ontologies and terminologies with medical standards for information exchange - Standards such as HL7, BRIDG, CDISC, DICOM, EN13606, ISO 18308, openEHR, together with medical terminologies and ontologies such as SNOMED, NCIt, LOINC, MedDRA, ICD, CTCAE, ATC for international Continuity of Care Record (CCR) and transmural care - Clinical Decision Support Systems - Methods for reusing patient data in clinical research - Patient recruitment, eligibility studies, and OWL/RDF models of eligibility criteria - Semantic Web standards and new proposals (e.g.: RuleML, RDF, OWL, SKOS, SPIN, Microformats) - Tools for ontology mapping, editing, annotation, versioning and provenance management - APIs and Tools for access to (distributed) knowledge bases (e.g.multi-agents, rest apis, semantic web services, OMG API4KB) - Semantic Scientific Workflows and eScience processes - RDF stores, NoSQL, reasoners, query and visualization systems - Knowledge representation for biomedical knowledge bases - Applications of query federation for distributed knowledge, data sharing, and data discovery - Access control and data security for medical data - Tools for semantics-enabled Web publication ________________________________________ Type of contributions The following possible contributions are sought: - Tutorials - Research papers - Position papers - Posters - Software demos ________________________________________ Proceedings Proceedings of SWAT4LS 2014 will be published in CEUR Workshop proceedings (http://ceur-ws.org/). ________________________________________ Special issue Authors of accepted contributions to the upcoming edition of SWAT4LS will be invited to submit to a special issue of the BMC Journal of Biomedical Semantics (tbc). ________________________________________ Deadlines Submission opening: June 30th, 2014 Expression of interest for tutorials: August 5th, 2014 Papers submission (abstracts): September 7th, 2014 Papers submission deadline (full text): September 15th, 2014 Posters and demos submission deadline: September 30th, 2014 Communication of acceptance: October 27th, 2014 Camera ready paper: November 18, 2014 Tutorials Tue, December 9, 2014 Workshop Wed, December 10, 2014 Hackathon Thu, December 11, 2014* (*) the hackathon may be extended to one extra optional day, pending confirmation of venues. ________________________________________ Instructions: All papers and posters must be in English and submitted in pdf format. Submissions for papers should report original research, and should be between 8 and 15 pages. Submissions for position papers should report qualified opinions, recommendations or conclusions, and should be between 3 and 6 pages. Submissions for posters should be between 2 and 4 pages. Submissions for software demo proposals should also be between 2 and 4 pages. Please upload all submissions as PDF files based on the LNCS format (http://www.springer.de/comp/lncs/authors.html). ________________________________________ Submission All submissions will be handled via the EasyChair submission system. https://www.easychair.org/conferences/?conf=swat4ls2014 To ensure high quality, submitted papers will be carefully peer-reviewed by at least three members of the Scientific Program Committee. ________________________________________ Tutorials Tutorial proposals consist of a brief description of the rationale for the tutorial, its content and the experience of presenters, they should be sent via email at in...@sw... no later than August 5th. However, tutorials will be accepted on an ongoing basis and we encourage early submissions. ________________________________________ Sponsorship We offer a variety of sponsorship options. Interested parties are invited to contact the organizers at in...@sw... . _______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: seljamar <sel...@bu...> - 2014-07-16 18:44:34
|
Apologies for cross-posting Please forward this message to colleagues in the areas of interest EXTENDED DEADLINE: July 25, 2014 Second International Workshop on Definitions in Ontologies (DO 2014) at the International Conference on Biomedical Ontologies (ICBO 2014) October 6-7, 2014 Houston, USA Website: https://sites.google.com/site/definitionsinontologies/ This workshop is a follow-up to the workshop on Definitions in Ontologies (DO 2013) held last year in Montreal in conjunction with ICBO 2013. The focus of this second workshop is on definition practices in either human or machine-assisted ontology development. PRESENTATION A current problem in ontology development is constructing the needed definitions of terms either logical or in natural language. For example, ontologies built using OBO Foundry principles are advised to include both logical and natural language definitions, but ontology developers too often focus on only one of these, or they pay insufficient attention to whether they are equivalent. Explicit definitions of terms in ontologies serve a number of purposes. Logical definitions allow reasoners to create inferred hierarchies, lessening the burden of asserting and checking the validity of subsumptions. Natural language definitions help to ameliorate the pervasive problem of low inter-annotator agreement. In specialized domains, experts will know their own field well, but may only have limited knowledge of adjacent disciplines. Good definitions make it possible for non-experts to understand unfamiliar terms and thereby make it possible for more confident reuse of terms by external ontologies, which in turn facilitates data integration. The goal of this workshop is to bring together interested researchers and developers to explore these issues by presenting case studies in a biomedical domain discussing the difficulties that arise when constructing definitions with a view to sharing strategies in the future. Even in the seemingly narrow domain of definition construction, cross-fertilization from related disciplines should yield benefits in quality and help to identify novel approaches. Papers submitted should include one or more case studies and raise specific questions related to definitions with a link to a biomedical domain. Reports on successful or unsuccessful methods are both appropriate. TOPICS -experiences in formulating definitions -tools that assist in definition editing, including collaborative systems -coordination of logical and textual definitions -validation and quality control of definitions, e.g., checking that definitions comply with the all/some form -methods for constructing definitions from multiple sources -use of controlled languages such as Rabbit or ACE for more user-friendly logical definition creation -use of templates to systematize definition creation FORMAT AND OUTCOMES This will be a half-day workshop with a selected mix of presentations based on accepted papers. In order to promote discussion, each presentation will be followed by a short response by a participant of the workshop to be arranged in advance of the workshop. This workshop will document findings on the workshop’s website (https://sites.google.com/site/definitionsinontologies/). We expect accepted papers to be published in the Journal of Biomedical Semantics (JBS). INTENDED AUDIENCE -ontologists, tool developers, and domain experts whose work encounters issues regarding definitions -tool developers building definition- or ontology-authoring tools -philosophers and logicians -biomedical researchers working on definitions in nomenclatures such as SNOMED -computer scientists addressing these issues in languages like OWL -NLP researchers working on definition extraction, generation, or checking -NLP/IR researchers reusing definitions produced for ontologies SUBMISSIONS All papers should include one or more case studies and raise specific questions related to definitions with a link to a biomedical domain. Papers should be between 5 and 10 pages long (rendered), excluding references, formatted using the JBS templates at http://www.jbiomedsem.com/authors/instructions/research#preparing-main-manuscript, and submitted via EasyChair (https://www.easychair.org/conferences/?conf=do2014). IMPORTANT DATES Workshop paper submission EXTENDED DEADLINE: July 25, 2014 Notification of paper acceptance: August 15, 2014 Camera-ready copies for the proceedings: September 15, 2014 Workshops: October 6-7, 2014 ORGANIZING COMMITTEE Selja Seppälä (University at Buffalo, USA) Patrick Ray (University at Buffalo, USA) Alan Ruttenberg (University at Buffalo, USA) PROGRAM COMMITTEE Nathalie Aussenac-Gilles (National Center for Scientific Research (CNRS), France) Mélanie Courtot (MBB Department Simon Fraser University and BC Public Health Microbiology & Reference Laboratory, Canada) Natalia Grabar (Université de Lille 3, France) Janna Hastings (European Bioinformatics Institute, Cambridge, UK) James Malone (European Bioinformatics Institute, Cambridge, UK) Alexis Nasr (Aix Marseille Université, France) Richard Power (The Open University, UK) Allan Third (The Open University, UK) SUPPORTED BY The Swiss National Science Foundation (SNSF) The State University of New York at Buffalo _______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: S. S. <sel...@gm...> - 2014-07-16 18:44:32
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: James M. <ma...@eb...> - 2014-06-26 21:47:47
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Csongor N. <cso...@st...> - 2014-06-10 22:22:25
|
The Protégé Team is really excited to announce that we are looking for 3 experienced software engineers to join the Stanford Center for Biomedical Informatics Research, to work on an exciting high impact project. Check out the details and apply to these positions using the following links (anticipated working title in parenthesis): https://stanford.taleo.net/careersection/2/jobdetail.ftl?job=62940 (Software Developer/Knowledge Modeler) https://stanford.taleo.net/careersection/2/jobdetail.ftl?job=62942 (Research Software Developer) https://stanford.taleo.net/careersection/2/jobdetail.ftl?job=62946 (Senior Research Software Developer) Successful candidates will be working in a close collaboration with the Protégé team members. Best regards, The Protégé Team _______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: James M. <ma...@eb...> - 2014-05-28 18:33:33
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Ray F. <ray...@st...> - 2014-05-08 19:53:25
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Carol B. <cb...@st...> - 2014-03-28 18:33:49
|
We are pleased to announce the upcoming Protein Ontology Workshop at Georgetown University in Washington DC on June 18-19, 2014. Please forward this announcement to interested colleagues. The goals of this meeting are: 1. To contribute to the ontological understanding of phenotype and disease across organisms. 2. To advance the treatment of protein-related clinical and translational data from the perspective of consistency, discoverability and support for diagnosis. Presentations will include: Cathy Wu (Delaware/Georgetown): Current Status and Future Goals of the Protein Ontology10:30 Break Peter d'Eustachio (NYU): PRO, Reactome and Disease Pathways Evan Bolton (NCBI) PubChemRDF: Towards a Semantic Description of PubChem Lynn Schriml (Baltimore): Collaboration of PRO and PubChem with the Disease Ontology John Westbrook (Protein Data Bank): PRO Represention of Proteins Observed in 3D Experimental Structure Alexander Diehl (Buffalo): PRO and the NIF / ImmPort Antibody Registries A special session will be devoted to the interoperation of PRO and UniProt. Sponsors - The Protein Ontology Consortium - National Center for Biomedical Ontology - National Center for Ontological Research There is no participation fee. Intending participants are invited to contact Barry Smith <phi...@bu...> for further information. Schedule and logistics details are provided here<http://ncorwiki.buffalo.edu/index.php/Protein_Ontology_Workshop> . _______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Carol B. <cb...@st...> - 2014-03-28 18:33:15
|
We are pleased to announce the upcoming Tutorial and Workshop on Ontology and Imaging Informatics at the University at Buffalo NY on June 23-25, 2014. Please forward this announcement to interested colleagues. The goal of this meeting is to advance discoverability, interoperability and combinability of biomedical imaging data. It consists of a tutorial (June 23) providing an introduction to imaging ontology, followed by two days of presentation and discussion of major contributions to biomedical imaging in radiology and digital pathology. The meeting will include community breakout groups addressing specific communities, including the CTSA consortium. Among the highlights of the schedule are the following presentations: - Ulysses Balis (Michigan): Introduction to Imaging Informatics: The Problem of Image Data Interoperability - William Hogan (Arkansas): Ontology in the CTSA Consortium - Daniel Rubin (Stanford): Imaging Big Data - Michael J. Becich (Pittsburgh): An Overview of Standards and Initiatives in Digital Pathology - Charles Kahn (Milwaukee): Radiology Gamuts Ontology: Differential Diagnosis in Radiology The meeting is sponsored by - Department of Pathology and Anatomy, University at Buffalo - Clinical and Translational Science Ontology Group. - National Center for Biomedical Ontology (NCBO) There is no participation fee but intending participants are invited to contact Barry Smith <phi...@bu...> to express their interest in attending. A schedule and logistics details are available here<http://ncorwiki.buffalo.edu/index.php/Ontology_and_Imaging_Informatics> . _______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Chris M. <cjm...@lb...> - 2013-10-09 00:05:06
|
of interest: ---------- Forwarded message ---------- From: Peter Yim <pet...@ci...> Date: Mon, Oct 7, 2013 at 10:22 PM Subject: [ontology-based-standards] "Ontology-based Standards" mini-series session-4 - The Case for a Quantity and Units of Measure Ontology Standard - Thu 2013.10.10 To: ontology-based-standards <ont...@on...> Re: http://ontolog.cim3.net/cgi-bin/wiki.pl?ConferenceCall_2013_10_10 Dear All, As confirmed during our Sep-12 community event scheduling session two "Ontology-based Standards" mini-series sessions will be coming up imminently - this Thursday (Oct-10) and next Thursday (Oct-17). These are the first two of the four session in this mini-series that we have planned for the rest of 2013. There are further sessions planned for 2014 too. You are cordially invited to join us at these sessions. ... RSVP now! (details below.) ******************* Hightlights ******************* * Thu 10 Oct 2013 - OntologyBasedStandards miniseries session-4 - Topic: The Case for a "Quantities and Units of Measure" Ontology Standard - Co-chairs: Mr. Peter Yim & Dr. Ram Sriram - see details on the session page at: http://ontolog.cim3.net/cgi-bin/wiki.pl?ConferenceCall_2013_10_10 ... RSVP now! * Thu 17 Oct 2013 - OntologyBasedStandards miniseries session-5 - Topic: Ontology-based Standards in Geospatial Domains - Co-chairs: Dr. Gary Berg-Cross & Dr. Tara Athan - see developing details on the session page at: http://ontolog.cim3.net/cgi-bin/wiki.pl?ConferenceCall_2013_10_17 *Register your attendance* by emailing <pet...@ci...> off-line or register yourself directly to the wiki session page. Please specify the date or name of the session(s) you are registering for (your affiliation too, if you are not already a member of the community.) ... RSVP ***************************************************** Now, for this Thursday's session ... = Ontology-based Standards miniseries session-4 - Thu 2013-10-10 = Session Co-chairs: Mr. Peter Yim (Ontolog; CIM3) & Dr. Ram Sriram* (NIST) Topic: The Case for a "Quantities and Units of Measure" Ontology Standard == Abstract == This is a continuation of the Ontology-based Standards mini-series that got started in late 2012. Since we have already had two content sessions and a planning session, this session is labeled as "session-4". That (3rd) brainstorm/planning session resulted in a program of 8 topics which we will be covering partly during the rest of 2013, and partly in 2014. Among one of the initiatives that spun off from OntologySummit2009: "Toward Ontology-based Standards" was the effort to work towards a "Quantities and Units of Measure" Ontology Standard ("QUOMOS"). A rather thorough survey of the landscape was done by the Ontolog Forum members, who then progressed the work to a standards development effort under the auspices of the OASIS QUOMOS TC. In parallel, various similar efforts were also active - notably the NASA QUDT (Quantities, Units, Dimensions, and Data Types) Handbook and Ontologies that came out earlier this year. For this session we have invited Mr. Ralph Hodgson, who led the development of this NASA/QUDT work, to give a brief introduction to this QUDT work. On our panel today, we have invited various User-domain Standards Developers (users of QUOMOS), as well as key members of the QUOMOS team (developers of QUOMOS) to share with us their perspectives. After the QUDT presentation, our other panelists will give short briefings to help kick-start the conversation. An open discussion will ensue, which will revolving around: I. given what (standards works) are already available[1], do we still see the need for a cross-domain, International Quantity and Units of Measure Ontology Standard (like what the OASIS QUOMOS TC has chartered[3]), and II. if so, what could/should that QUOMOS ontology standard deliver, to best meet user needs and expectations? What we really hope to gain out of today's session, is a dialog between the users and developers of the QUOMOS standard ontology, so that the work products from this effort will not be something that sits on the shelf, but something that meet the needs and expectations of its users. Please also refer to the "Ontology-based Standards" mini-series homepage at: http://ontolog.cim3.net/cgi-bin/wiki.pl?OntologyBasedStandards [1] see: http://ontolog.cim3.net/cgi-bin/wiki.pl?UoM [3] see: https://www.oasis-open.org/committees/quomos/charter.php ****************** These sessions, like all Ontolog virtual events, are open and free of charge. Anyone who is interested, or (better still) who may have something to contribute, is welcome. Please refer to event details on the session pages, to which the hyperlink is given above, where you will find session agenda, conference call dial-in, slides and other pertinent information. Feel free to pass this invitation along to colleagues who may also find these sessions to be of interest. *RSVP* by emailing Peter Yim at <pet...@ci...> offline (or add yourself directly to the session page if you are already an Ontolog community member) so that we can prepare enough resources to support everyone. [Please state clearly the date of the session you are registering for in your email; your affiliation too, if you are not a community member.] These sessions will be recorded and made available in a publicly accessible archive. Therefore, before participating, please make sure you are cognizant of our IPR policy (ref: http://ontolog.cim3.net/cgi-bin/wiki.pl?WikiHomePage#nid32). Regards. =ppy For the Session Co-chairs Peter Yim & Ram Sriram ... along with other co-champions of the Ontology-based Standards mini-series -- _________________________________________________________________ Message Archives: http://ontolog.cim3.net/forum/ontology-based-standards/ Subscribe: mailto:ont...@on... Config/Unsubscribe: http://ontolog.cim3.net/mailman/listinfo/ontology-based-standards/ Shared Files: http://ontolog.cim3.net/file/work/OntologyBasedStandards/ Wiki: http://ontolog.cim3.net/cgi-bin/wiki.pl?OntologyBasedStandards |
From: Ray F. <ray...@st...> - 2013-09-26 02:50:13
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Ray F. <ray...@st...> - 2013-09-16 19:32:29
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |
From: Chiara D. V. <wom...@ea...> - 2013-06-30 16:30:56
|
======================================================== 7th Int'l Workshop on Modular Ontologies (WoMO) Corunna, Spain, September, 2013 held in conjunction with LPNMR 2013 --- Final Call for Papers --- ======================================================== +++ STUDENT TRAVEL GRANTS AVAILABLE +++ +++ EXTENDED SUBMISSION DEADLINE: July 12, 2013 +++ ======================================================== +++ Following requests, we have extended the submission deadline to July 12, 2013. +++ INVITED SPEAKERS: * Till Mossakowski, University of Bremen, Germany Till Mossakowski is extraordinary professor of computer science at the University of Bremen. He is a leading international figure in modular and heterogeneous specification of logical theories and ontologies. * George Vouros, University of Piraeus, Greece George Vouros is a professor in the Department of Digital Systems at the University of Piraeus. His research work spans from knowledge representation and reasoning, focusing on the engineering, acquisition, evolution, alignment, and coordination of ontologies, to multi-agent systems, focusing on agent organizations and their adaptation, agents' collaboration and coordination, and architectures of collaborative agents. http://www.iaoa.org/womo/2013.html MODULARITY, studied for years in software engineering, allows mechanisms for easy and flexible reuse, generalization, structuring, maintenance, design patterns, and comprehension. In formal and applied ontology, modularity is central to reducing the complexity of designing and understanding ontologies, and to facilitating ontology verification, reasoning, development, maintenance and integration. Recent research on ontology modularity shows substantial progress in foundations of modularity, techniques of modularization and modular development, distributed reasoning and empirical evaluation. These results provide a solid foundation and exciting prospects for further research and development. The workshop continues a series of successful events that have been an excellent venue for practitioners and researchers to discuss latest and current work. The most recent WoMOs were held at ESSLLI 2011 and FOIS/ICBO 2012. This time WoMO is organised as a workshop of LPNMR 2013: the 12th International Conference on Logic Programming and Non-monotonic Reasoning. LPNMR is well-established as the main conference in the field. The workshop will be open to all attendants of LPMNR'13 and its workshops. Workshop speakers will be required to register for WoMO via the LPMNR'13 website. Registration for WoMO only will be possible. STUDENT TRAVEL GRANTS: With the generous support of the IAOA, we are happy to provide funding to students. Priority will be given to student presenters and authors of accepted papers. More details will be published at a later date. TOPICS include, but are not limited to: - What is modularity?: kinds of modules and their properties; modules vs. contexts; design patterns; granularity of representation; - Logical/foundational studies: modular ontology languages; reconciling inconsistencies across modules; formal structuring of modules; heterogeneity; hybrid theories; intertheory relations (conservativity, interpretability, strong equivalence, inseparability, etc.) - Algorithmic approaches: distributed and incremental reasoning; modularization and module extraction; sharing, linking, reuse; privacy; complexity of reasoning; implemented systems; - Evaluation of modularizations: case studies or other analyses of ontology modularizations (why it is modularized in a certain way, what does it address, how can it be improved); how to measure the adequacy of a modularization; comparison of modularizations with respect to philosophical, logical, reasoning, cognitive, or social aspects; - Applications: semantic web; life sciences; earth sciences; bio-ontologies; natural language processing; space and time; ambient intelligence; social intelligence; technology and engineering; collaborative ontology development and ontology versioning. IMPORTANT DATES: Paper Submission: July 12, 2013 (extended) Notification: August 19, 2013 Camera ready: September 2, 2013 Workshop: September 15, 2013 SUBMISSION GUIDELINES: We welcome submissions on modularity in a broad sense. The workshop is open to papers of theoretical or practical nature from various disciplines. Submissions can be long papers (11 pages) or short papers (5 pages), formatted according to Springer LNCS style (see http://www.springer.com/comp/lncs/Authors.html), prepared in PDF format and submitted no later than the submission deadline, through the EasyChair Submission System (see http://www.easychair.org/conferences/?conf=womo2013). Submitted papers will be peer-reviewed by members of the program committee. Accepted papers will be made available in the proceedings to be published electronically in the CEUR Workshop Proceedings series (see http://www.ceur-ws.org). Proceedings of WoMO 2011 and 2012 can be found at http://www.booksonline.iospress.nl/Content/View.aspx?piid=20369 and at http://ceur-ws.org/Vol-875/. WORKSHOP CHAIRS: Torsten Hahmann, University of Toronto, Canada David Pearce, Universidad Politecnica de Madrid, Spain Chiara Del Vescovo, University of Manchester, UK Dirk Walther, TU Dresden, Germany PROGRAM COMMITTEE: Kenneth Baclawski, Northeastern University, Boston, MA, USA Eva Blomqvist, Linköping University, Sweden Alex Borgida, Rutgers University, USA Stefano Borgo, Laboratory for Applied Ontology, ISTC-CNR, Trento, Italy Gerhard Brewka, University of Leipzig, Germany Mike Dean, Raytheon BBN Technologies, Ann Arbor, MI, USA Thomas Eiter, Technical University of Vienna, Austria Pawel Garbacz, Catholic University of Lublin, Poland Dagmar Gromann, Vienna University of Economics and Business, Austria Michael Gruninger, University of Toronto, Canada Robert Hoehndorf, University of Cambridge, UK Dieter Hutter, DFKI GmbH, Bremen, Germany Tomi Janhunen, Aalto University, Helsinki, Finland Pavel Klinov, University of Ulm, Germany Christoph Lange, University of Birmingham, UK Thomas Meyer, CSIR Meraka Institute, Pretoria, South Africa Leo Obrst, MITRE, McLean, VA, USA Marco Schorlemmer, IIIA-CSIC, Barcelona, Spain Luciano Serafini, Fondazione Bruno Kessler, Trento, Italy Dmitry Tsarkov, The University of Manchester, UK |
From: Chiara D. V. <wom...@ea...> - 2013-06-05 23:59:34
|
======================================================== 7th Int'l Workshop on Modular Ontologies (WoMO) Corunna, Spain, September, 2013 held in conjunction with LPNMR 2013 --- Third Call for Papers --- --- Student Travel Grants available --- ======================================================== Submission deadline: July 5, 2013 ======================================================== http://www.iaoa.org/womo/2013.html MODULARITY, studied for years in software engineering, allows mechanisms for easy and flexible reuse, generalization, structuring, maintenance, design patterns, and comprehension. In formal and applied ontology, modularity is central to reducing the complexity of designing and understanding ontologies, and to facilitating ontology verification, reasoning, development, maintenance and integration. Recent research on ontology modularity shows substantial progress in foundations of modularity, techniques of modularization and modular development, distributed reasoning and empirical evaluation. These results provide a solid foundation and exciting prospects for further research and development. The workshop continues a series of successful events that have been an excellent venue for practitioners and researchers to discuss latest and current work. The most recent WoMOs were held at ESSLLI 2011 and FOIS/ICBO 2012. This time WoMO is organised as a workshop of LPNMR 2013: the 12th International Conference on Logic Programming and Non-monotonic Reasoning. LPNMR is well-established as the main conference in the field. The workshop will be open to all attendants of LPMNR'13 and its workshops. Workshop speakers will be required to register for WoMO via the LPMNR'13 website. Registration for WoMO only will be possible. STUDENT TRAVEL GRANTS: With the generous support of the IAOA, we are happy to provide funding to students. Priority will be given to student presenters and authors of accepted papers. More details will be published at a later date. TOPICS include, but are not limited to: - What is modularity?: kinds of modules and their properties; modules vs. contexts; design patterns; granularity of representation; - Logical/foundational studies: modular ontology languages; reconciling inconsistencies across modules; formal structuring of modules; heterogeneity; hybrid theories; intertheory relations (conservativity, interpretability, strong equivalence, inseparability, etc.) - Algorithmic approaches: distributed and incremental reasoning; modularization and module extraction; sharing, linking, reuse; privacy; complexity of reasoning; implemented systems; - Evaluation of modularizations: case studies or other analyses of ontology modularizations (why it is modularized in a certain way, what does it address, how can it be improved); how to measure the adequacy of a modularization; comparison of modularizations with respect to philosophical, logical, reasoning, cognitive, or social aspects; - Applications: semantic web; life sciences; earth sciences; bio-ontologies; natural language processing; space and time; ambient intelligence; social intelligence; technology and engineering; collaborative ontology development and ontology versioning. IMPORTANT DATES Paper Submission: July 5, 2013 Notification: August 19, 2013 Camera ready: September 2, 2013 Workshop: September 15, 2013 SUBMISSION GUIDELINES: We welcome submissions on modularity in a broad sense. The workshop is open to papers of theoretical or practical nature from various disciplines. Submissions can be long papers (11 pages) or short papers (5 pages), formatted according to Springer LNCS style (see http://www.springer.com/comp/lncs/Authors.html), prepared in PDF format and submitted no later than the submission deadline, through the EasyChair Submission System (see http://www.easychair.org/conferences/?conf=womo2013). Submitted papers will be peer-reviewed by members of the program committee. Accepted papers will be made available in the proceedings to be published electronically in the CEUR Workshop Proceedings series (see http://www.ceur-ws.org). Proceedings of WoMO 2011 and 2012 can be found at http://www.booksonline.iospress.nl/Content/View.aspx?piid=20369 and at http://ceur-ws.org/Vol-875/. WORKSHOP CHAIRS: Torsten Hahmann, University of Toronto, Canada David Pearce, Universidad Politecnica de Madrid, Spain Chiara Del Vescovo, University of Manchester, UK Dirk Walther, TU Dresden, Germany PROGRAM COMMITTEE: Kenneth Baclawski, VIStology, Inc. Eva Blomqvist, Linköping University Alex Borgida, Rutgers University Stefano Borgo, Laboratory for Applied Ontology, ISTC-CNR, Trento Gerhard Brewka, University of Leipzig Mike Dean, Raytheon BBN Technologies Thomas Eiter, Technical University of Vienna Pawel Garbacz, The John Paul II Catholic University of Lublin Dagmar Gromann, Vienna University of Economics and Business Michael Gruninger, University of Toronto Robert Hoehndorf, University of Cambridge Dieter Hutter, DFKI GmbH Tomi Janhunen, Aalto University Pavel Klinov, University of Ulm Christoph Lange, University of Birmingham Thomas Meyer, Centre for Artificial Intelligence Research, UKZN and CSIR Meraka Leo Obrst, MITRE Marco Schorlemmer, Artificial Intelligence Research Institute, IIIA, CSIC Luciano Serafini, Fondazione Bruno Kessler Dmitry Tsarkov, The University of Manchester INVITED SPEAKERS: TBA |
From: Chiara D. V. <wom...@ea...> - 2013-06-05 23:55:25
|
======================================================== 7th Int'l Workshop on Modular Ontologies (WoMO) Corunna, Spain, September, 2013 held in conjunction with LPNMR 2013 --- Third Call for Papers --- --- Student Travel Grants available --- ======================================================== Submission deadline: July 5, 2013 ======================================================== http://www.iaoa.org/womo/2013.html MODULARITY, studied for years in software engineering, allows mechanisms for easy and flexible reuse, generalization, structuring, maintenance, design patterns, and comprehension. In formal and applied ontology, modularity is central to reducing the complexity of designing and understanding ontologies, and to facilitating ontology verification, reasoning, development, maintenance and integration. Recent research on ontology modularity shows substantial progress in foundations of modularity, techniques of modularization and modular development, distributed reasoning and empirical evaluation. These results provide a solid foundation and exciting prospects for further research and development. The workshop continues a series of successful events that have been an excellent venue for practitioners and researchers to discuss latest and current work. The most recent WoMOs were held at ESSLLI 2011 and FOIS/ICBO 2012. This time WoMO is organised as a workshop of LPNMR 2013: the 12th International Conference on Logic Programming and Non-monotonic Reasoning. LPNMR is well-established as the main conference in the field. The workshop will be open to all attendants of LPMNR'13 and its workshops. Workshop speakers will be required to register for WoMO via the LPMNR'13 website. Registration for WoMO only will be possible. STUDENT TRAVEL GRANTS: With the generous support of the IAOA, we are happy to provide funding to students. Priority will be given to student presenters and authors of accepted papers. More details will be published at a later date. TOPICS include, but are not limited to: - What is modularity?: kinds of modules and their properties; modules vs. contexts; design patterns; granularity of representation; - Logical/foundational studies: modular ontology languages; reconciling inconsistencies across modules; formal structuring of modules; heterogeneity; hybrid theories; intertheory relations (conservativity, interpretability, strong equivalence, inseparability, etc.) - Algorithmic approaches: distributed and incremental reasoning; modularization and module extraction; sharing, linking, reuse; privacy; complexity of reasoning; implemented systems; - Evaluation of modularizations: case studies or other analyses of ontology modularizations (why it is modularized in a certain way, what does it address, how can it be improved); how to measure the adequacy of a modularization; comparison of modularizations with respect to philosophical, logical, reasoning, cognitive, or social aspects; - Applications: semantic web; life sciences; earth sciences; bio-ontologies; natural language processing; space and time; ambient intelligence; social intelligence; technology and engineering; collaborative ontology development and ontology versioning. IMPORTANT DATES Paper Submission: July 5, 2013 Notification: August 19, 2013 Camera ready: September 2, 2013 Workshop: September 15, 2013 SUBMISSION GUIDELINES: We welcome submissions on modularity in a broad sense. The workshop is open to papers of theoretical or practical nature from various disciplines. Submissions can be long papers (11 pages) or short papers (5 pages), formatted according to Springer LNCS style (see http://www.springer.com/comp/lncs/Authors.html), prepared in PDF format and submitted no later than the submission deadline, through the EasyChair Submission System (see http://www.easychair.org/conferences/?conf=womo2013). Submitted papers will be peer-reviewed by members of the program committee. Accepted papers will be made available in the proceedings to be published electronically in the CEUR Workshop Proceedings series (see http://www.ceur-ws.org). Proceedings of WoMO 2011 and 2012 can be found at http://www.booksonline.iospress.nl/Content/View.aspx?piid=20369 and at http://ceur-ws.org/Vol-875/. WORKSHOP CHAIRS: Torsten Hahmann, University of Toronto, Canada David Pearce, Universidad Politecnica de Madrid, Spain Chiara Del Vescovo, University of Manchester, UK Dirk Walther, TU Dresden, Germany PROGRAM COMMITTEE: Kenneth Baclawski, VIStology, Inc. Eva Blomqvist, Linköping University Alex Borgida, Rutgers University Stefano Borgo, Laboratory for Applied Ontology, ISTC-CNR, Trento Gerhard Brewka, University of Leipzig Mike Dean, Raytheon BBN Technologies Thomas Eiter, Technical University of Vienna Pawel Garbacz, The John Paul II Catholic University of Lublin Dagmar Gromann, Vienna University of Economics and Business Michael Gruninger, University of Toronto Robert Hoehndorf, University of Cambridge Dieter Hutter, DFKI GmbH Tomi Janhunen, Aalto University Pavel Klinov, University of Ulm Christoph Lange, University of Birmingham Thomas Meyer, Centre for Artificial Intelligence Research, UKZN and CSIR Meraka Leo Obrst, MITRE Marco Schorlemmer, Artificial Intelligence Research Institute, IIIA, CSIC Luciano Serafini, Fondazione Bruno Kessler Dmitry Tsarkov, The University of Manchester INVITED SPEAKERS: TBA |
From: BioPortal C. <cu...@bi...> - 2013-04-24 23:38:59
|
You are listed as the contact person in BioPortal for the ontology: Units of measurement We have begun a process to update and cleanup the ontology metadata and for all ontologies in BioPortal. It is in everyone¹s interest for have complete and correct metadata for all ontologies. In addition, ontologies with better metadata will also receive more attention and use. Units of measurement is one of the most commonly used ontologies in BioPortal (58 out of 563). In the past year your ontology has received 254 hits on our site. We invite you to update your ontology metadata, upload a more recent version, and add citations and project links so users can find more information on your work. In addition, if we have corrected URLs for ontology homepage, publications, and documentation we can drive more users to your site and references. Please go to BioPortal and ensure that we have the latest version of your ontology and that all of the metadata visible on the summary page is correct. The link for your ontology is: http://bioportal.bioontology.org/ontologies/50119 Please update and correct your ontology by May 3, 2013. If you no longer want to maintain your ontology in BioPortal, please respond and let us know and we will remove it. Thank you for helping us with this effort and we look forward to providing updated information to our growing user community that currently consists of more than 70,000 unique users/month. Best Wishes, The BioPortal Team |
From: Chiara D. V. <wom...@ea...> - 2013-04-23 17:01:35
|
To whom it may concern: Apologies for cross-posting. Please consider the following Call for Papers for immediate release. Best regards, Chiara Del Vescovo ======================================================== 7th Int'l Workshop on Modular Ontologies (WoMO) Corunna, Spain, September, 2013 held in conjunction with LPNMR 2013 --- Second Call for Papers --- --- NEW: Student Travel Grants available --- ======================================================== Submission deadline: July 5, 2013 ======================================================== http://www.iaoa.org/womo/2013.html MODULARITY, studied for years in software engineering, allows mechanisms for easy and flexible reuse, generalization, structuring, maintenance, design patterns, and comprehension. In formal and applied ontology, modularity is central to reducing the complexity of designing and understanding ontologies, and to facilitating ontology verification, reasoning, development, maintenance and integration. Recent research on ontology modularity shows substantial progress in foundations of modularity, techniques of modularization and modular development, distributed reasoning and empirical evaluation. These results provide a solid foundation and exciting prospects for further research and development. The workshop continues a series of successful events that have been an excellent venue for practitioners and researchers to discuss latest and current work. The most recent WoMOs were held at ESSLLI 2011 and FOIS/ICBO 2012. This time WoMO is organised as a workshop of LPNMR 2013: the 12th International Conference on Logic Programming and Non-monotonic Reasoning. LPNMR is well-established as the main conference in the field. The workshop will be open to all attendants of LPMNR'13 and its workshops. Workshop speakers will be required to register for WoMO via the LPMNR'13 website. Registration for WoMO only will be possible. STUDENT TRAVEL GRANTS: With the generous support of the IAOA, we are happy to provide funding to students. Priority will be given to student presenters and authors of accepted papers. More details will be published at a later date. TOPICS include, but are not limited to: - What is modularity?: kinds of modules and their properties; modules vs. contexts; design patterns; granularity of representation; - Logical/foundational studies: modular ontology languages; reconciling inconsistencies across modules; formal structuring of modules; heterogeneity; hybrid theories; intertheory relations (conservativity, interpretability, strong equivalence, inseparability, etc.) - Algorithmic approaches: distributed and incremental reasoning; modularization and module extraction; sharing, linking, reuse; privacy; complexity of reasoning; implemented systems; - Evaluation of modularizations: case studies or other analyses of ontology modularizations (why it is modularized in a certain way, what does it address, how can it be improved); how to measure the adequacy of a modularization; comparison of modularizations with respect to philosophical, logical, reasoning, cognitive, or social aspects; - Applications: semantic web; life sciences; earth sciences; bio-ontologies; natural language processing; space and time; ambient intelligence; social intelligence; technology and engineering; collaborative ontology development and ontology versioning. IMPORTANT DATES Paper Submission: July 5, 2013 Notification: August 19, 2013 Camera ready: September 2, 2013 Workshop: September 15, 2013 SUBMISSION GUIDELINES: We welcome submissions on modularity in a broad sense. The workshop is open to papers of theoretical or practical nature from various disciplines. Submissions can be long papers (11 pages) or short papers (5 pages), formatted according to Springer LNCS style (see http://www.springer.com/comp/lncs/Authors.html), prepared in PDF format and submitted no later than the submission deadline, through the EasyChair Submission System (see http://www.easychair.org/conferences/?conf=womo2013). Submitted papers will be peer-reviewed by members of the program committee. Accepted papers will be made available in the proceedings to be published electronically in the CEUR Workshop Proceedings series (see http://www.ceur-ws.org). Proceedings of WoMO 2011 and 2012 can be found at http://www.booksonline.iospress.nl/Content/View.aspx?piid=20369 and at http://ceur-ws.org/Vol-875/. WORKSHOP CHAIRS: Torsten Hahmann, University of Toronto, Canada David Pearce, Universidad Politecnica de Madrid, Spain Chiara Del Vescovo, University of Manchester, UK Dirk Walther, TU Dresden, Germany PROGRAM COMMITTEE: Kenneth Baclawski, VIStology, Inc. Eva Blomqvist, Linköping University Alex Borgida, Rutgers University Stefano Borgo, Laboratory for Applied Ontology, ISTC-CNR, Trento Gerhard Brewka, University of Leipzig Mike Dean, Raytheon BBN Technologies Thomas Eiter, Technical University of Vienna Pawel Garbacz, The John Paul II Catholic University of Lublin Dagmar Gromann, Vienna University of Economics and Business Michael Gruninger, University of Toronto Robert Hoehndorf, University of Cambridge Dieter Hutter, DFKI GmbH Tomi Janhunen, Aalto University Pavel Klinov, University of Ulm Christoph Lange, University of Birmingham Thomas Meyer, Centre for Artificial Intelligence Research, UKZN and CSIR Meraka Leo Obrst, MITRE Marco Schorlemmer, Artificial Intelligence Research Institute, IIIA, CSIC Luciano Serafini, Fondazione Bruno Kessler Dmitry Tsarkov, The University of Manchester INVITED SPEAKERS: TBA |
From: Trish W. <wh...@st...> - 2013-04-12 07:04:28
|
_______________________________________________ bioportal-announce mailing list bio...@li... https://mailman.stanford.edu/mailman/listinfo/bioportal-announce |