Khresmoi Multilingual Medical Text Analysis, Search and Machine Translation Connected in a Thriving Data-Value Chain

Leistungen

Requirements for Medical Record Analysis and Search

This deliverable will summarise the interactions and decisions made during the requirements specification process for the medical record analysis and search

Initial Data Management Plan

The Data Management Plan will describe the data that KConnect will generate whether and how it will be exploited or made accessible for verification and reuse and how it will be curated and preserved

Ethics Approvals

This deliverable responds to the Ethics Screening Report It will include copies of ethical approvals for the collection of personal data by the competent University Data Protection Officer National Data Protection authority and detailed information on the procedures that will be implemented for data collection storage protection retention and destruction as well as confirmation that they comply with national and EU legislation

Updated Data Management Plan

The Data Management Plan will describe the data that KConnect will generate whether and how it will be exploited or made accessible for verification and reuse and how it will be curated and preserved

Component Interoperability Architecture

This deliverable will describe the KConnect cloud infrastructure and design the service interface of key project services

Requirements for Vertical Search Solutions

This deliverable will summarise the interactions and decisions made during the requirements specification process for the vertical search solutions

Final KConnect web site

The final version of the KConnect web site as described in Task 51

Initial KConnect web site

The initial version of the KConnect web site as described in Task 51

Log Analysis and Document Classification Toolkit (First Version)

This toolkit will comprise the crosslingual medical document classification tools for a number of useful classes such as readability trustability and target audience as well as crosslingual medical search log analysis tools with interesting behaviour patterns available Tools and guidelines for adding new classes and behaviours will also be part of this toolkit

Toolkit and Report for Translator Adaptation to New Languages (Final Version)

A set of tools allowing easy addition of new languages to the Khresmoi Translator by exploiting various training resources decision support tools to assist in the choice of resources to include based on their price or effort to expected increase in translation performance and a user guide on how to add a new language

Toolkit and Report for Translator Adaptation to New Languages (First Version)

A set of tools allowing easy addition of new languages to the Khresmoi Translator by exploiting various training resources decision support tools to assist in the choice of resources to include based on their price or effort to expected increase in translation performance and a user guide on how to add a new language

Adaptation to Hungarian, Swedish, and Polish

Khresmoi Translator adapted to translation from English to Hungarian Swedish Polish and vice versa based on publicly available resources and data automatically harvested from the web

Semantic Annotation Toolkit (First Version)

This toolkit will comprise processes for adapters to follow when moving KConnect to a new language and the tools required to make this shift It will include tools for configuring the annotation pipeline and for integrating terminologies Documentation will include guides for sourcing the required resources and for adapting them where neccesary

Log Analysis and Document Classification Toolkit (Final Version)

This toolkit will comprise the crosslingual medical document classification tools for a number of useful classes such as readability trustability and target audience as well as crosslingual medical search log analysis tools with interesting behaviour patterns available Tools and guidelines for adding new classes and behaviours will also be part of this toolkit

Semantic Annotation Toolkit (Final Version)

This toolkit will comprise processes for adapters to follow when moving KConnect to a new language and the tools required to make this shift It will include tools for configuring the annotation pipeline and for integrating terminologies Documentation will include guides for sourcing the required resources and for adapting them where neccesary

Veröffentlichungen

Language Independent Tokenization vs. Stemming in Automated Detection of Health Websites’ HONcode Conformity: An Evaluation

Autoren: Célia Boyer, Ljiljana Dolamic, Gilles Falquet
Veröffentlicht in: Procedia Computer Science, Ausgabe 64, 2015, Seite(n) 224-231, ISSN 1877-0509
Herausgeber: Elsevier
DOI: 10.1016/j.procs.2015.08.484

Automated Detection of HONcode Website Conformity Compared to Manual Detection: An Evaluation

Autoren: Célia Boyer, Ljiljana Dolamic
Veröffentlicht in: Journal of Medical Internet Research, Ausgabe 17/6, 2015, Seite(n) e135, ISSN 1438-8871
Herausgeber: Journal of medical Internet Research
DOI: 10.2196/jmir.3831

How users search and what they search for in the medical domain

Autoren: João Palotti, Allan Hanbury, Henning Müller, Charles E. Kahn
Veröffentlicht in: Information Retrieval Journal, Ausgabe 19/1-2, 2016, Seite(n) 189-224, ISSN 1386-4564
Herausgeber: Kluwer Academic Publishers
DOI: 10.1007/s10791-015-9269-8

Negative symptoms in schizophrenia: a study in a large clinical sample of patients using a novel automated method

Autoren: Rashmi Patel, Nishamali Jayatilleke, Matthew Broadbent, Chin-Kuo Chang, Nadia Foskett, Genevieve Gorrell, Richard D Hayes, Richard Jackson, Caroline Johnston, Hitesh Shetty, Angus Roberts, Philip McGuire, Robert Stewart
Veröffentlicht in: BMJ Open, Ausgabe 5/9, 2015, Seite(n) e007619, ISSN 2044-6055
Herausgeber: BMJ Publishing Group
DOI: 10.1136/bmjopen-2015-007619

Extracting antipsychotic polypharmacy data from electronic health records: developing and evaluating a novel process

Autoren: Giouliana Kadra, Robert Stewart, Hitesh Shetty, Richard G. Jackson, Mark A. Greenwood, Angus Roberts, Chin-Kuo Chang, James H. MacCabe, Richard D. Hayes
Veröffentlicht in: BMC Psychiatry, Ausgabe 15/1, 2015, ISSN 1471-244X
Herausgeber: BioMed Central
DOI: 10.1186/s12888-015-0557-z

Making sense of big data in health research: Towards an EU action plan

Autoren: Charles Auffray, Rudi Balling, Inês Barroso, László Bencze, Mikael Benson, Jay Bergeron, Enrique Bernal-Delgado, Niklas Blomberg, Christoph Bock, Ana Conesa, Susanna Del Signore, Christophe Delogne, Peter Devilee, Alberto Di Meglio, Marinus Eijkemans, Paul Flicek, Norbert Graf, Vera Grimm, Henk-Jan Guchelaar, Yi-Ke Guo, Ivo Glynne Gut, Allan Hanbury, Shahid Hanif, Ralf-Dieter Hilgers, Ángel Ho
Veröffentlicht in: Genome Medicine, Ausgabe 8/1, 2016, ISSN 1756-994X
Herausgeber: BioMed Central
DOI: 10.1186/s13073-016-0323-y

Neural Monkey: An Open-source Tool for Sequence Learning

Autoren: Jindřich Helcl, Jindřich Libovický
Veröffentlicht in: The Prague Bulletin of Mathematical Linguistics, Ausgabe 107/1, 2017, Seite(n) 5-17, ISSN 0032-6585
Herausgeber: De Gruyter
DOI: 10.1515/pralin-2017-0001

Natural language processing to extract symptoms of severe mental illness from clinical text: the Clinical Record Interactive Search Comprehensive Data Extraction (CRIS-CODE) project

Autoren: Richard G Jackson, Rashmi Patel, Nishamali Jayatilleke, Anna Kolliakou, Michael Ball, Genevieve Gorrell, Angus Roberts, Richard J Dobson, Robert Stewart
Veröffentlicht in: BMJ Open, Ausgabe 7/1, 2017, Seite(n) e012012, ISSN 2044-6055
Herausgeber: BMJ Publishing Group
DOI: 10.1136/bmjopen-2016-012012

Automated PDF highlighting to support faster curation of literature for Parkinson’s and Alzheimer’s disease

Autoren: Honghan Wu, Anika Oellrich, Christine Girges, Bernard de Bono, Tim J.P. Hubbard, Richard J.B. Dobson
Veröffentlicht in: Database, Ausgabe 2017/1, 2017, ISSN 1758-0463
Herausgeber: Oxford University Press
DOI: 10.1093/database/bax027

Language, Structure, and Reuse in the Electronic Health Record

Autoren: Angus Roberts
Veröffentlicht in: The AMA Journal of Ethic, Ausgabe 19/3, 2017, Seite(n) 281-288, ISSN 2376-6980
Herausgeber: American Medical Association
DOI: 10.1001/journalofethics.2017.19.3.stas1-1703

The Influence of Pre-processing on the Estimation of Readability of Web Documents

Autoren: João Rafael de Moura Palotti, Guido Zuccon, Allan Hanbury
Veröffentlicht in: Proceedings of the 24th ACM International on Conference on Information and Knowledge Management, 2015, Seite(n) 1763-1766, ISBN 978-1-4503-3794-6
Herausgeber: ACM

CUNI in WMT15: Chimera Strikes Again

Autoren: Ondřej Bojar, Aleš Tamchyna
Veröffentlicht in: Proceedings of the Tenth Workshop on Statistical Machine Translation, 2015, Seite(n) 79-83
Herausgeber: Association for Computational Linguistics
DOI: 10.18653/v1/W15-3006

CLEF eHealth Evaluation Lab 2015, Task 2: Retrieving Information About Medical Symptoms

Autoren: Joao Palotti, Guido Zuccon, Lorraine Goeuriot, Liadh Kelly, Allan Hanbury, Gareth Jones, Mihai Lupu, Pavel Pecina
Veröffentlicht in: Working Notes of CLEF 2015 - Conference and Labs of the Evaluation forum, 2015
Herausgeber: CEUR Workshop Proceedings

CUNI at the CLEF 2015 eHealth Lab Task 2

Autoren: Shadi Saleh, Feraena Bibyna, Pavel Pecina
Veröffentlicht in: Working Notes of CLEF 2015 - Conference and Labs of the Evaluation forum, 2015
Herausgeber: CEUR Workshop Proceedings

What a Transfer-Based System Brings to the Combination with PBMT

Autoren: Aleš Tamchyna, Ondrej Bojar
Veröffentlicht in: Proceedings of the Fourth Workshop on Hybrid Approaches to Translation (HyTra), 2015, Seite(n) 11-20
Herausgeber: Association for Computational Linguistics
DOI: 10.18653/v1/W15-4103

UFPRSheffield: Contrasting Rule-based and Support Vector Machine Approaches to Time Expression Identification in Clinical TempEval

Autoren: Hegler Tissot, Genevieve Gorrell, Angus Roberts, Leon Derczynski, Marcos Didonet Del Fabro
Veröffentlicht in: Proceedings of the 9th International Workshop on Semantic Evaluation (SemEval 2015), 2015, Seite(n) 835-839
Herausgeber: Association for Computational Linguistics
DOI: 10.18653/v1/S15-2141

Effect of the Named Entity Recognition and Sliding Window on the HONcode Automated Detection of HONcode Criteria for Mass Health Online Content

Autoren: Celia Boyer, Ljiljana Dolamic, Patrick Ruch, Gilles Falquet
Veröffentlicht in: Proceedings of the 9th International Joint Conference on Biomedical Engineering Systems and Technologies, 2016, Seite(n) 151-158, ISBN 978-989-758-170-0
Herausgeber: SCITEPRESS - Science and and Technology Publications
DOI: 10.5220/0005644301510158

Encoding Medication Episodes for Adverse Drug Event Prediction

Autoren: Honghan Wu, Zina M. Ibrahim, Ehtesham Iqbal, Richard J. B. Dobson
Veröffentlicht in: 2016, Seite(n) 245-250
Herausgeber: Springer International Publishing
DOI: 10.1007/978-3-319-47175-4_18

Adapting SMT Query Translation Reranker to New Languages in Cross-Lingual Information Retrieval

Autoren: Pecina, Pavel; Saleh, Shadi
Veröffentlicht in: Ausgabe 6, 2016
Herausgeber: workshop organisers

Overview of the CLEF eHealth Evaluation Lab 2016

Autoren: Liadh Kelly, Lorraine Goeuriot, Hanna Suominen, Aurélie Névéol, João Palotti, Guido Zuccon
Veröffentlicht in: 2016, Seite(n) 255-266
Herausgeber: Springer International Publishing
DOI: 10.1007/978-3-319-44564-9_24

Task3 Patient-Centred Information Retrieval: Team CUNI

Autoren: Pecina, Pavel; Saleh, Shadi
Veröffentlicht in: Ausgabe 1, 2017
Herausgeber: CEUR-WS

Assessors Agreement: A Case Study across Assessor Type, Payment Levels, Query Variations and Relevance Dimensions

Autoren: Joao Palotti, Guido Zuccon, Johannes Bernhardt, Allan Hanbury, Lorraine Goeuriot
Veröffentlicht in: 2016, Seite(n) 40-53
Herausgeber: Springer International Publishing
DOI: 10.1007/978-3-319-44564-9_4

TUW @ TREC Clinical Decision Support Track 2015

Autoren: Joao Palotti, Allan Hanbury
Veröffentlicht in: Text Retrieval Conference, 2015
Herausgeber: NIST

Task3 Patient-Centred Information Retrieval: Team CUNI

Autoren: Saleh Shadi, Pavel Pecina
Veröffentlicht in: CLEF 2016 Working Notes, 2016, Seite(n) 123-129
Herausgeber: CEUR-WS

Does Online Evaluation Correspond to Offline Evaluation in Query Auto Completion?

Autoren: Alexandros Bampoulidis, João Palotti, Mihai Lupu, Jon Brassey, Allan Hanbury
Veröffentlicht in: 2017, Seite(n) 713-719
Herausgeber: Springer International Publishing
DOI: 10.1007/978-3-319-56608-5_70

Ranking Health Web Pages with Relevance and Understandability

Autoren: Joao Palotti, Lorraine Goeuriot, Guido Zuccon, Allan Hanbury
Veröffentlicht in: Proceedings of the 39th International ACM SIGIR conference on Research and Development in Information Retrieval - SIGIR '16, 2016, Seite(n) 965-968, ISBN 9781-450340694
Herausgeber: ACM Press
DOI: 10.1145/2911451.2914741

The IR Task at the CLEF eHealth Evaluation Lab 2016: User-centred Health Information Retrieval

Autoren: Pecina, Pavel; Deacon, Anthony; Lupu, Mihai; Zuccon, Guido; Kelly, Liadh; Palotti, João; Goeuriot, Lorraine; Müller, Henning; Budaher, Julie
Veröffentlicht in: Ausgabe 4, 2016
Herausgeber: CEUR-WS

CUNI System for WMT16 Automatic Post-Editing and Multimodal Translation Tasks

Autoren: Jindřich Libovický, Jindřich Helcl, Marek Tlustý, Ondřej Bojar, Pavel Pecina
Veröffentlicht in: Proceedings of the First Conference on Machine Translation: Volume 2, Shared Task Papers, 2016, Seite(n) 646-654
Herausgeber: Association for Computational Linguistics
DOI: 10.18653/v1/W16-2361

Reranking Hypotheses of Machine-Translated Queries for Cross-Lingual Information Retrieval

Autoren: Pecina, Pavel; Saleh, Shadi
Veröffentlicht in: Experimental IR Meets Multilinguality, Multimodality, and Interaction 7th International Conference of the CLEF Association, Ausgabe 5, 2016, Seite(n) 54-66, ISBN 978-3-319-44563-2
Herausgeber: Springer

Interactive exploration of healthcare queries

Autoren: Alexandras Bampoulidis, Mihai Lupu, Joao Palotti, Sokratis Metallidis, Jon Brassey, Allan Hanbury
Veröffentlicht in: 2016 14th International Workshop on Content-Based Multimedia Indexing (CBMI), 2016, Seite(n) 1-4, ISBN 978-1-4673-8695-1
Herausgeber: IEEE
DOI: 10.1109/cbmi.2016.7500275

Using Health Statistics to Improve Medical and Health Search

Autoren: Tawan Sierek, Allan Hanbury
Veröffentlicht in: Experimental IR Meets Multilinguality, Multimodality, and Interaction, 2015, Seite(n) 287-292, ISBN 978-3-319-24027-5
Herausgeber: Springer International Publishing
DOI: 10.1007/978-3-319-24027-5_30

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