Open Mining INfrastructure for TExt and Data

Informazioni relative al progetto

OpenMinTeD

ID dell’accordo di sovvenzione: 654021

DOI 10.3030/654021

Progetto chiuso

Data della firma CE 15 Aprile 2015

Data di avvio 1 Giugno 2015

Data di completamento 31 Maggio 2018

Finanziato da

• EXCELLENT SCIENCE - Research Infrastructures

Costo totale € 6 068 072,50

Contributo UE € 5 375 535,50

Coordinato da

ATHINA-EREVNITIKO KENTRO KAINOTOMIAS STIS TECHNOLOGIES TIS PLIROFORIAS, TON EPIKOINONION KAI TIS GNOSIS
Greece

Risultati finali

Documents, reports (30)

Quality Assurance & Risk Management Plan

This deliverable comprises the Quality plan for the OpenMinTeD project. It documents the general quality policies, procedures and practices to be followed by partners throughout the duration of the project.

Interoperability Landscaping Report

A white paper to chart existing standards and specifications in the technological landscape of TDM

Platform UI Specification (26)

Description of OpenMinTeD end user functionalities and interactions. (M26)

Platform UI Specification (20)

Description of OpenMinTeD end user functionalities and interactions. (M20)

OpenMinTeD functional specifications

Functional specifications of the OpenMinTeD platform. These will be based on requirements analysis of D4.2

Platform services distributi on specification (M26)

Report that will specify how registered TDM services run on the cloud or other back end environment. (M26)

Platform release plan

A report describing the software engineering processes and artefacts to be used, and the timing of intermediate releases.

Platform Architectural Specification (26)

Architectural specification of the OpenMinTeD platform, including communication of various components. (M26)

Community Evaluation Scenarios Definition Report

Definition of concrete and detailed scenarios to form the conceptual design of community driven applications that will assist in the evaluation process

Platform UI Specification

Description of OpenMinTeD end user functionalities and interactions.

Open Calls Programme Implementation Report

Report on the mechanisms, logistics, processes, decisions and resultsof the tender calls

Platform Architectural Specification

Architectural specification of the OpenMinTeD platform, including communication of various components.

Community Driven Evaluation Methodology (indicators)

Short document that, based on community input, describes key performance indicators (and target values when available)

First Support and Training Activities Report

Report that describes the supporting and training activities of the first period.

Platform Interoperability Guidelines

Technical guidelines for infrastructure interoperability that include representations, protocols and processes. There will be sets of guidelines, each targeted to a stakeholder group.

Community Driven Evaluation Report

Report that describes the evaluation (progress and adequacy/usability) of all types of users that will be involved in the vertical use case scenarios

Final Support and Training Activities Report

Report that describes all support and training activities of the project.

Platform Interoperability Guidelines (M28)

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Open Calls Specifications

Document that describes directions/interests for calls and outlines the tender rules for participation.

Interoperability Standards and Specifications Report (20)

Interoperability specification draft for the text mining infrastructure based on the outcome of four working groups addressing language resources, resource metadata, annotations, and licensing (Month 20)

Interoperability Standards and Specifications Report

Interoperability specification draft for the text mining infrastructure based on the outcome of four working groups addressing language resources, resource metadata, annotations, and licensing.

Interoperability Standards and Specifications Report (26)

Interoperability specification draft for the text mining infrastructure based on the outcome of four working groups addressing language resources, resource metadata, annotations, and licensing (Month 26)

Community Requirement Analysis Report

Report that describes the distinct user community requirements, identifying the gaps and commonalities.

Requirements methodology

Methodology and plan for the requirements elicitation

Collaboration and Liaison Plan

Identification ofpossible collaborationsand liaisons, their relevance to OpenMinTeD to determine maximum exposure of OpenMinTeD and its results.

Community Driven Applications Design Report (26)

Report on the implementation of the community driven applications defined in D4.3 (M26)

Platform services distribution specification

Report that will specify how registered TDM services run on the cloud or other back end environment.

Lessons Learnt - Whitepaper from OpenMinTeD experiences

A white/position paper describing the OpenMinTeD experience, with recommendations for the way forward.

Community Driven Applications Design Report

Report on the implementation of the community driven applications defined in D4.3

Platform Architectural Specification (M20)

Architectural specification of the OpenMinTeD platform, including communication of various components. (M20)

Other (19)

Dissemination plan and roadmap (living document)

Presentation of the overall communication strategy of the project to determine maximum exposure of OpenMinTeD and its results

Support kit for TDM topics (30)

A set of guides, faqs, links related to various TDM topics. Related to legal, policy, technology. (M30)

Infrastructure data and service providers registration (36)

This will be an online report of all content and service providers that have registered in OpenMinTeD. (M36)

Testing methodology

Description of the methodology for testing the platform. Includes benchmarks on performance and quality.

Platform Software Documentation

On line software documentation of the platform components (relevant to the platform architecture).

On-Line Support Knowledge Base

A web based knowledge base of topics (legal, policy, technical) related to TDM.

Support kit for TDM topics (M18)

A set of guides, faqs, links related to various TDM topics. Related to legal, policy, technology. (M18)

Infrastructure Operation Report (30)

The deliverable will consist in a high-level report on the status of OpenMinTeDhardware, operation, workflows, and services. (M30)

Infrastructure Operation Report (M24)

The deliverable will consist in a high-level report on the status of OpenMinTeDhardware, operation, workflows, and services. (M24)

Application Software Documentation – updated periodically

Documentation for the community drive applications

Support kit for TDM topics (24)

A set of guides, faqs, links related to various TDM topics. Related to legal, policy, technology. (M24)

Infrastructure Operation Report (36)

The deliverable will consist in a high-level report on the status of OpenMinTeDhardware, operation, workflows, and services. (M36)

Application Software Release Report

Report on release version of community driven applications

Infrastructure data and service providers registration (30)

This will be an online report of all content and service providers that have registered in OpenMinTeD. (M30)

Software Release Report – continuously updated

A report describing intermediate software releases, and the current state of integration, testing and deployment.

Infrastructure Operation Report

The deliverable will consist in a high-level report on the status of OpenMinTeDhardware, operation, workflows, and services.

Infrastructure data and service providers registration

This will be an online report of all content and service providers that have registered in OpenMinTeD.

Infrastructure data and service providers registration (24)

This will be an online report of all content and service providers that have registered in OpenMinTeD. (M24)

Support kit for TDM topics (M10)

A set of guides, faqs, links related to various TDM topics. Related to legal, policy, technology. (M10)

Pubblicazioni

Conference proceedings (23)

EELECTION at SemEval-2017 Task 10: Ensemble of nEural Learners for kEyphrase ClassificaTION

Autori: Steffen Eger, Erik-Lân Do Dinh, Ilia Kuznetsov, Masoud Kiaeeha, Iryna Gurevych
Pubblicato in: Proceedings of the 11th International Workshop on Semantic Evaluation (SemEval-2017), Numero August 3rd 2017, 2017, Pagina/e 942--946
Editore: Association for Computational Linguistics

A Legal Perspective on Training Models for Natural Language Processing

Autori: Richard Eckart de Castilho, Giulia Dore, Thomas Margoni, Penny Labropoulou, Iryna Gurevych
Pubblicato in: Proceedings of the Eleventh International Conference on Language Resources and Evaluation (LREC 2018), Numero May 9th 2018, 2018, Pagina/e 1267--1274, ISBN 979-10-95546-00-9
Editore: European Language Resources Association (ELRA)

Incidental or influential? - Challenges in automatically detecting citation importance using publication full texts

Autori: Pride, David; Knoth, Petr
Pubblicato in: 21st International Conference on Theory and Practise of Digital Libraries (TPDL), 2017
Editore: Springer
DOI: 10.1007/978-3-319-67008-9_48

Incidental or influential? – A decade of using text-mining for citation function classification.

Autori: Pride, David; Knoth, Petr
Pubblicato in: 16th International Society of Scientometrics and Informetrics Conference, 2017
Editore: ORO

Overview of the Regulatory Network of Plant Seed Development (SeeDev) Task at the BioNLP Shared Task 2016.

Autori: Estelle Chaix, Bertrand Dubreucq, Abdelhak Fatihi, Dialekti Valsamou, Robert Bossy, Mouhamadou Ba, Louise Delėger, Pierre Zweigenbaum, Philippe Bessières, Loïc Lepiniec, Claire Nėdellec
Pubblicato in: Proceedings of the 4th BioNLP Shared Task Workshop, 2016, Pagina/e 1-11
Editore: Association for Computational Linguistics
DOI: 10.18653/v1/W16-3001

Text mining and ontologies: new approaches to knowledge discovery of microbial diversity

Autori: Nédellec C., Bossy R., Chaix E., Deléger L.
Pubblicato in: Proceedings of the 4th International Microbial Diversity Conference, 2017, Pagina/e 221--227
Editore: University of Bari, Italy

Text mining needs of the food microbiology research community

Autori: Estelle Chaix, Sophie Aubin, Louise Deléger, and Claire Nédellec
Pubblicato in: 2017 EFITA WCCA Congress, 2017
Editore: EFITA

Cross-Platform Text Mining and Natural Language Processing Interoperability - Proceedings of the LREC2016 conference

Autori: de Castilho, R. E., Ananiadou, S., Margoni, T., Peters, W. and Piperidis, S. (Eds.) (2016) Cross-Platform Text Mining and Natural Language Processing Interoperability
Pubblicato in: Proceedings of the LREC2016 conference, Numero 2016, 2016, Pagina/e 1 - 72
Editore: European Language Resources Association

The Text and Data Mining exception in the Proposal for a Directive on Copyright in the Digital Single Market: Why it is not what EU copyright law needs

Autori: Thomas Margoni Martin Kretschmer
Pubblicato in: EPIP 2018, Numero Yearly, 2018, Pagina/e forthcoming
Editore: EPIP 2018

Mining Social Science Publications for Survey Variables

Autori: Zielinski, Andrea; Mutschke, Peter
Pubblicato in: Proceedings of the Second Workshop on NLP and Computational Social ScienceVancouver, Canada, August 3, 2017, 2017, Pagina/e 47-52, ISBN 978-1-945626-65-4
Editore: Association for Computational Linguistics
DOI: 10.5281/zenodo.1299970

Towards a Gold Standard Corpus for Variable Detection and Linking in Social Science Publications

Autori: Zielinski, Andrea; Mutschke, Peter
Pubblicato in: Proceedings of 11th International Conference on Language Resources and Evaluation (LREC), Miyazaki (Japan), 2018, 2018, ISBN 979-10-95546-00-9
Editore: European Language Resources Association (ELRA)
DOI: 10.5281/zenodo.1299977

OpenMinTeD: A Platform Facilitating Text Mining of Scholarly Content

Autori: Penny Labropoulou, Dimitrios Galanis, Antonis Lempesis, Mark A. Greenwood, Petr Knoth, Richard Eckart de Castilho, Stavros Sachtouris, Byron Georgantopoulos, Lucas Anastasiou, Stefania Martziou, Katerina Gkirtzou, Natalia Manola, Stelios Piperidis
Pubblicato in: Proceedings of the Eleventh International Conference on Language Resources and Evaluation (LREC 2018), Numero May 2018, 2018, ISBN 979-10-95546-20-7
Editore: European Language Resources Association (ELRA)

Language infrastructures in support of text mining

Autori: Stelios Piperidis, Maria Gavrilidou, Penny Labropoulou
Pubblicato in: 5th International workshop On Mining Scientific Publications (WOSP 2016), Numero 22-23 June 2016, 2016
Editore: WOSP
DOI: 10.5281/zenodo.1475164

Interoperability = f(community, division of labour)

Autori: Richard Eckart de Castilho
Pubblicato in: Proceedings of the Workshop on Cross-Platform Text Mining and Natural Language Processing Interoperability (INTEROP 2016) at LREC 2016, Numero May 23rd 2016, 2016, Pagina/e 24--28
Editore: European Language Resources Association (ELRA)
DOI: 10.5281/zenodo.161848

Automatic Analysis of Flaws in Pre-Trained NLP Models

Autori: Richard Eckart de Castilho
Pubblicato in: Proceedings of the Third International Workshop on Worldwide Language Service Infrastructure and Second Workshop on Open Infrastructures and Analysis Frameworks for Human Language Technologies, Numero 12 Dec 2016, 2016, Pagina/e 19--27
Editore: WLSI-OIAF4HLT-2016 Organizing Committee

A New Corpus to Support Text Mining for the Curation of Metabolites in the ChEBI Database

Autori: Matthew Shardlow, Nhung T.H. Nguyen, Gareth Owen, Steve Turner, Claire O’Donovan, Andrew Leach, John McNaught, Sophia Ananiadou
Pubblicato in: Proceedings of the Eleventh International Conference on Language Resources and Evaluation (2018), Numero May 2018, 2018, ISBN 979-10-95546-00-9
Editore: European Language Resources Association (ELRA)
DOI: 10.5281/zenodo.1468908

Evaluation of chemical and gene/protein entity recognition systems at BioCreative V.5: the CEMP and GPRO patents tracks

Autori: Pérez-Pérez, Martin; Rabal, Obdulia; Pérez-Rodríguez, Gael; Vazquez, Miguel; Fdez-Riverola, Florentino; Oyarzabal, Julen; Valencia, Alfonso; Lourenço, Anália; Krallinger, Martin
Pubblicato in: Proceedings of the BioCreative V.5 Challenge Evaluation Workshop, Numero 7, 2017
Editore: CEB

Benchmarking biomedical text mining web servers at BioCreative V.5: the technical Interoperability and Performance of annotation Servers - TIPS track

Autori: Pérez-Pérez, Martin; Pérez-Rodríguez, Gael; Blanco-Míguez, Aitor; Fdez-Riverola, Florentino; Valencia, Alfonso; Krallinger, Martin; Lourenço, Anália
Pubblicato in: Proceedings of the BioCreative V.5 Challenge Evaluation Workshop, Numero 8, 2017
Editore: CEB

The BioCreative V.5 evaluation workshop: tasks, organization, sessions and topics

Autori: Martin Krallinger, Martin Pérez-Pérez, Gael Pérez-Rodríguez, Aitor Blanco-Míguez, Florentino Fdez-Riverola, Salvador Capella-Gutierrez, Anália Lourenço, Alfonso Valencia
Pubblicato in: Proceedings of the BioCreative V.5 Challenge Evaluation Workshop, 2017
Editore: CEB

Aggregating Research Papers from Publishers’ Systems to Support Text and Data Mining: Deliberate Lack of Interoperability or Not?

Autori: Knoth, Petr; Pontika, Nancy
Pubblicato in: Proceedings of the Workshop on Cross-Platform Text Mining and Natural Language Processing Interoperability (INTEROP 2016) at LREC 2016, Numero May 23rd 2016, 2016, Pagina/e 1-4
Editore: European Language Resources Association (ELRA)
DOI: 10.5281/zenodo.194788

Tackling Resource Interoperability: Principles, Strategies and Models

Autori: Wim Peters
Pubblicato in: Proceedings of the Workshop on Cross-Platform Text Mining and Natural Language Processing Interoperability (INTEROP 2016) at LREC 2016, Numero May 23rd 2016, 2016, Pagina/e 34-37
Editore: European Language Resources Association (ELRA)

Legal Interoperability Issues in the Framework of the OpenMinTeD Project: A Methodological Overview

Autori: Labropoulou, Penny, Piperidis, Stelios, & Margoni, Thomas
Pubblicato in: Workshop on Cross-Platform Text Mining and Natural Language Processing Interoperability (INTEROP2016), Numero 23 May 2016, 2016
Editore: ELRA
DOI: 10.5281/zenodo.182497

Interoperability of corpus processing work-flow engines: the case of AlvisNLP/ML in OpenMinTeD

Autori: Mouhamadou Ba; Robert Bossy
Pubblicato in: Proceedings of the Workshop on Cross-Platform Text Mining and Natural Language Processing Interoperability (INTEROP 2016) at LREC 2016, Numero May 23rd 2016, 2016, Pagina/e 15--18
Editore: European Language Resources Association (ELRA)
DOI: 10.5281/zenodo.200370

Book chapters (2)

Classifying document types to enhance search and recommendations in digital libraries

Autori: Charalampous, Aristotelis; Knoth, Petr
Pubblicato in: 21st International Conference on Theory and Practise of Digital Libraries (TPDL), Numero 2, 2017
Editore: Springer, Cham
DOI: 10.1007/978-3-319-67008-9_15

Intellectual Property and Text and Data Mining

Autori: Thomas Margoni
Pubblicato in: HANDBOOK ON INTELLECTUAL PROPERTY RESEARCH, Numero 2018, Pagina/e Sec. 32
Editore: OUP

Peer reviewed articles (8)

Text mining tools for extracting information about microbial biodiversity in food

Autori: Estelle Chaix, Louise Deléger, Robert Bossy, Claire Nédellec
Pubblicato in: Food Microbiology, 2018, ISSN 0740-0020
Editore: Academic Press
DOI: 10.1016/j.fm.2018.04.011

A Text Mining Pipeline Using Active and Deep Learning for Curating Information in Computational Neuroscience

Autori: Matthew Shardlow, Meizhi Ju, Maolin Li, Christian O'Reilly, Elisabetta Iavarone, John McNaught, Sophia Ananiadou
Pubblicato in: Neuroinformatics, 2018, ISSN 1539-2791
Editore: Humana Press, Inc.
DOI: 10.1007/s12021-018-9404-y

Finding Convincing Arguments Using Scalable Bayesian Preference Learning

Autori: Edwin D. Simpson, Iryna Gurevych
Pubblicato in: Transactions of the Association for Computational Linguistics, Numero 6, 2018, Pagina/e 357--371, ISSN 2307-387X
Editore: Association for Computational Linguistics

Identification of research hypotheses and new knowledge from scientific literature

Autori: Matthew Shardlow, Riza Batista-Navarro, Paul Thompson, Raheel Nawaz, John McNaught, Sophia Ananiadou
Pubblicato in: BMC Medical Informatics and Decision Making, Numero 18/1, 2018, ISSN 1472-6947
Editore: BioMed Central
DOI: 10.1186/s12911-018-0639-1

LimTox: a web tool for applied text mining of adverse event and toxicity associations of compounds, drugs and genes

Autori: Andres Cañada, Salvador Capella-Gutierrez, Obdulia Rabal, Julen Oyarzabal, Alfonso Valencia, Martin Krallinger
Pubblicato in: Nucleic Acids Research, Numero 45/W1, 2017, Pagina/e W484-W489, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkx462

Information Retrieval and Text Mining Technologies for Chemistry

Autori: Martin Krallinger, Obdulia Rabal, Anália Lourenço, Julen Oyarzabal, Alfonso Valencia
Pubblicato in: Chemical Reviews, Numero 117/12, 2017, Pagina/e 7673-7761, ISSN 0009-2665
Editore: American Chemical Society
DOI: 10.1021/acs.chemrev.6b00851

Text mining resources for the life sciences

Autori: Piotr Przybyła, Matthew Shardlow, Sophie Aubin, Robert Bossy, Richard Eckart de Castilho, Stelios Piperidis, John McNaught, Sophia Ananiadou
Pubblicato in: Database, Numero 2016, 2016, ISSN 1758-0463
Editore: Oxford University Press

Analysis of the effect of sentiment analysis on extracting adverse drug reactions from tweets and forum posts

Autori: Ioannis Korkontzelos, Azadeh Nikfarjam, Matthew Shardlow, Abeed Sarker, Sophia Ananiadou, Graciela H. Gonzalez
Pubblicato in: Journal of Biomedical Informatics, Numero 62, 2016, Pagina/e 148-158, ISSN 1532-0464
Editore: Academic Press
DOI: 10.1016/j.jbi.2016.06.007

Other (4)

Frequently Asked Questions on Creative Commons & Open Access

Autori: CREATe (UoG) OpenMinTeD
Pubblicato in: 2017
Editore: OpenMinTeD
DOI: 10.5281/zenodo.841086

Fact Sheet on Creative Commons & Open Science

Autori: CREATe OpenMinTeD
Pubblicato in: 2017
Editore: CREATe
DOI: 10.5281/zenodo.840652

OpenMinTeD Executive Summary

Autori: Androniki Pavlidou
Pubblicato in: Numero 1, 2018
Editore: None
DOI: 10.5281/zenodo.1404146

Why We Need a Text and Data Mining Exception (But it is Not Enough)

Autori: Margoni, Thomas; Dore, Giulia
Pubblicato in: Proceedings of the Workshop on Cross-Platform Text Mining and Natural Language Processing Interoperability (INTEROP 2016) at LREC 2016, Numero May 23rd 2016, 2016, Pagina/e 57--59
Editore: European Language Resources Association (ELRA)
DOI: 10.5281/zenodo.248048