Sarvnaz Karimi

Alexandra Bratanova

Claire K. Naughtin

CoRR, 2023

Matching of Patient Questionnaires to Clinical Trials with Large Language Models.

[BibT_eX]

[DOI]

Proceedings of the Thirty-Second Text REtrieval Conference Proceedings (TREC 2023), 2023

SciHarvester: Searching Scientific Documents for Numerical Values.

[BibT_eX]

[DOI]

Proceedings of the 46th International ACM SIGIR Conference on Research and Development in Information Retrieval, 2023

MedRedQA for Medical Consumer Question Answering: Dataset, Tasks, and Neural Baselines.

[BibT_eX]

[DOI]

Proceedings of the 13th International Joint Conference on Natural Language Processing and the 3rd Conference of the Asia-Pacific Chapter of the Association for Computational Linguistics, 2023

Rethinking the Role of Entity Type in Relation Classification.

[BibT_eX]

[DOI]

Stephen Wan

Proceedings of the 13th International Joint Conference on Natural Language Processing and the 3rd Conference of the Asia-Pacific Chapter of the Association for Computational Linguistics, 2023

A Self-Learning Resource-Efficient Re-Ranking Method for Clinical Trials Search.

[BibT_eX]

[DOI]

Proceedings of the 32nd ACM International Conference on Information and Knowledge Management, 2023

Can Social Media Inform Dietary Approaches for Health Management? A Dataset and Benchmark for Low-Carb Diet.

[BibT_eX]

[DOI]

Proceedings of the 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks, 2023

CSIRO Data61 Team at BioLaySumm Task 1: Lay Summarisation of Biomedical Research Articles Using Generative Models.

[BibT_eX]

[DOI]

Proceedings of the 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks, 2023

2022

Search like an expert: Reducing expertise disparity using a hybrid neural index for COVID-19 queries.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2022

Detecting Entities in the Astrophysics Literature: A Comparison of Word-based and Span-based Entity Recognition Methods.

[BibT_eX]

[DOI]

CoRR, 2022

Matching a Patient from An Admission Note to Clinical Trials: Experiments with Query Generation and Neural-Ranking.

[BibT_eX]

[DOI]

Proceedings of the Thirty-First Text REtrieval Conference, 2022

A2A-API: A Prototype for Biomedical Information Retrieval Research and Benchmarking.

[BibT_eX]

[DOI]

Liam Watts

Proceedings of the SIGIR '22: The 45th International ACM SIGIR Conference on Research and Development in Information Retrieval, Madrid, Spain, July 11, 2022

2021

Show, tell and summarise: learning to generate and summarise radiology findings from medical images.

[BibT_eX]

[DOI]

Neural Comput. Appl., 2021

CSIROmed Team Report of TREC 2021 Clinical Trials track: Experiments with BERT Reranking Methods.

[BibT_eX]

[DOI]

Proceedings of the Thirtieth Text REtrieval Conference, 2021

Science2Cure: A Clinical Trial Search Prototype.

[BibT_eX]

[DOI]

Aleney Khoo

Proceedings of the SIGIR '21: The 44th International ACM SIGIR Conference on Research and Development in Information Retrieval, 2021

Will Sorafenib Help?: Treatment-aware Reranking in Precision Medicine Search.

[BibT_eX]

[DOI]

Proceedings of the CIKM '21: The 30th ACM International Conference on Information and Knowledge Management, Virtual Event, Queensland, Australia, November 1, 2021

SearchEHR: A Family History Search System for Clinical Decision Support.

[BibT_eX]

[DOI]

Proceedings of the CIKM '21: The 30th ACM International Conference on Information and Knowledge Management, Virtual Event, Queensland, Australia, November 1, 2021

2020

Clinical trial search: Using biomedical language understanding models for re-ranking.

[BibT_eX]

[DOI]

Jerry Xu

J. Biomed. Informatics, 2020

Matching patients to clinical trials using semantically enriched document representation.

[BibT_eX]

[DOI]

Hamed Hassanzadeh

Anthony N. Nguyen

J. Biomed. Informatics, 2020

Beyond mean rating: Probabilistic aggregation of star ratings based on helpfulness.

[BibT_eX]

[DOI]

Wenyi Tay

Xiuzhen Zhang

J. Assoc. Inf. Sci. Technol., 2020

Survey of Text-based Epidemic Intelligence: A Computational Linguistics Perspective.

[BibT_eX]

[DOI]

ACM Comput. Surv., 2020

Searching Scientific Literature for Answers on COVID-19 Questions.

[BibT_eX]

[DOI]

CoRR, 2020

A2A: a platform for research in biomedical literature search.

[BibT_eX]

[DOI]

BMC Bioinform., 2020

CSIROmed at TREC Precision Medicine 2020.

[BibT_eX]

[DOI]

Proceedings of the Twenty-Ninth Text REtrieval Conference, 2020

Cost-effective Selection of Pretraining Data: A Case Study of Pretraining BERT on Social Media.

[BibT_eX]

[DOI]

Proceedings of the Findings of the Association for Computational Linguistics: EMNLP 2020, 2020

An Effective Transition-based Model for Discontinuous NER.

[BibT_eX]

[DOI]

Proceedings of the 58th Annual Meeting of the Association for Computational Linguistics, 2020

2019

Survey of Text-based Epidemic Intelligence: A Computational Linguistic Perspective.

[BibT_eX]

[DOI]

CoRR, 2019

CSIRO at 2019 TREC Precision Medicine Track.

[BibT_eX]

[DOI]

Proceedings of the Twenty-Eighth Text REtrieval Conference, 2019

An Experimentation Platform for Precision Medicine.

[BibT_eX]

[DOI]

Brian Jin

Proceedings of the 42nd International ACM SIGIR Conference on Research and Development in Information Retrieval, 2019

Using Similarity Measures to Select Pretraining Data for NER.

[BibT_eX]

[DOI]

Proceedings of the 2019 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, 2019

From Chest X-Rays to Radiology Reports: A Multimodal Machine Learning Approach.

[BibT_eX]

[DOI]

Proceedings of the 2019 Digital Image Computing: Techniques and Applications, 2019

Biomedical Concept Detection in Medical Images: MQ-CSIRO at 2019 ImageCLEFmed Caption Task.

[BibT_eX]

[DOI]

Proceedings of the Working Notes of CLEF 2019, 2019

ANU-CSIRO at MEDIQA 2019: Question Answering Using Deep Contextual Knowledge.

[BibT_eX]

[DOI]

Zhenchang Xing

Proceedings of the 18th BioNLP Workshop and Shared Task, 2019

A Comparison of Word-based and Context-based Representations for Classification Problems in Health Informatics.

[BibT_eX]

[DOI]

Proceedings of the 18th BioNLP Workshop and Shared Task, 2019

NNE: A Dataset for Nested Named Entity Recognition in English Newswire.

[BibT_eX]

[DOI]

Proceedings of the 57th Conference of the Association for Computational Linguistics, 2019

Figurative Usage Detection of Symptom Words to Improve Personal Health Mention Detection.

[BibT_eX]

[DOI]

Proceedings of the 57th Conference of the Association for Computational Linguistics, 2019

Red-faced ROUGE: Examining the Suitability of ROUGE for Opinion Summary Evaluation.

[BibT_eX]

[DOI]

Proceedings of the The 17th Annual Workshop of the Australasian Language Technology Association, 2019

Investigating the Effect of Lexical Segmentation in Transformer-based Models on Medical Datasets.

[BibT_eX]

[DOI]

Zhenchang Xing

Proceedings of the The 17th Annual Workshop of the Australasian Language Technology Association, 2019

Does Multi-Task Learning Always Help?: An Evaluation on Health Informatics.

[BibT_eX]

[DOI]

Proceedings of the The 17th Annual Workshop of the Australasian Language Technology Association, 2019

2018

Transferability of artificial neural networks for clinical document classification across hospitals: A case study on abnormality detection from radiology reports.

[BibT_eX]

[DOI]

J. Biomed. Informatics, 2018

Benchmarking Clinical Decision Support Search.

[BibT_eX]

[DOI]

CoRR, 2018

Shot Or Not: Comparison of NLP Approaches for Vaccination Behaviour Detection.

[BibT_eX]

[DOI]

Proceedings of the 2018 EMNLP Workshop SMM4H: The 3rd Social Media Mining for Health Applications Workshop & Shared Task, 2018

A2A: Benchmark Your Clinical Decision Support Search.

[BibT_eX]

[DOI]

Proceedings of the 41st International ACM SIGIR Conference on Research & Development in Information Retrieval, 2018

Modality Classification and Concept Detection in Medical Images Using Deep Transfer Learning.

[BibT_eX]

[DOI]

Proceedings of the 2018 International Conference on Image and Vision Computing New Zealand, 2018

Computer-Assisted Diagnostic Coding: Effectiveness of an NLP-based approach using SNOMED CT to ICD-10 mappings.

[BibT_eX]

[DOI]

Proceedings of the AMIA 2018, 2018

2017

CSIRO at 2017 TREC Precision Medicine Track.

[BibT_eX]

[DOI]

Proceedings of The Twenty-Sixth Text REtrieval Conference, 2017

Automatic Diagnosis Coding of Radiology Reports: A Comparison of Deep Learning and Conventional Classification Methods.

[BibT_eX]

[DOI]

Proceedings of the BioNLP 2017, Vancouver, Canada, August 4, 2017, 2017

Medication and Adverse Event Extraction from Noisy Text.

[BibT_eX]

[DOI]

Proceedings of the Australasian Language Technology Association Workshop, 2017

2016

CSIRO at TREC Clinical Decision Support Track.

[BibT_eX]

[DOI]

Sara Falamaki

Proceedings of The Twenty-Fifth Text REtrieval Conference, 2016

Concept Identification and Normalisation for Adverse Drug Event Discovery in Medical Forums.

[BibT_eX]

[DOI]

Proceedings of the First International Workshop on Biomedical Data Integration and Discovery (BMDID 2016) co-located with The 15th International Semantic Web Conference (ISWC 2016), 2016

Parallel Duplicate Detection in Adverse Drug Reaction Databases with Spark.

[BibT_eX]

[DOI]

Proceedings of the 19th International Conference on Extending Database Technology, 2016

Evaluation of Retrieval Algorithms for Expertise Search.

[BibT_eX]

[DOI]

Gaya K. Jayasinghe

Melanie Ayre

Proceedings of the 21st Australasian Document Computing Symposium, 2016

2015

Automatic classification of diseases from free-text death certificates for real-time surveillance.

[BibT_eX]

[DOI]

BMC Medical Informatics Decis. Mak., 2015

Cadec: A corpus of adverse drug event annotations.

[BibT_eX]

[DOI]

Madonna Kemp

J. Biomed. Informatics, 2015

Text and Data Mining Techniques in Adverse Drug Reaction Detection.

[BibT_eX]

[DOI]

Raj Gaire

ACM Comput. Surv., 2015

Concept Extraction to Identify Adverse Drug Reactions in Medical Forums: A Comparison of Algorithms.

[BibT_eX]

[DOI]

CoRR, 2015

Evaluation Methods for Statistically Dependent Text.

[BibT_eX]

[DOI]

Jiri Baum

Comput. Linguistics, 2015

Using Social Media to Enhance Emergency Situation Awareness: Extended Abstract.

[BibT_eX]

[DOI]

Proceedings of the Twenty-Fourth International Joint Conference on Artificial Intelligence, 2015

CADEminer: A System for Mining Consumer Reports on Adverse Drug Side Effects.

[BibT_eX]

[DOI]

Anthony N. Nguyen

Proceedings of the Eighth Workshop on Exploiting Semantic Annotations in Information Retrieval, 2015

2014

Differences between social media and regulatory databases in adverse drug reaction discovery.

[BibT_eX]

[DOI]

Proceedings of the SoMeRA'14, 2014

Evaluation of text-processing algorithms for adverse drug event extraction from social media.

[BibT_eX]

[DOI]

Proceedings of the SoMeRA'14, 2014

Pinpointing Locational Focus in Microblogs.

[BibT_eX]

[DOI]

John Lingad

Proceedings of the 2014 Australasian Document Computing Symposium, 2014

A Study of Querying Behaviour of Expert and Non-expert Users of Biomedical Search Systems.

[BibT_eX]

[DOI]

Proceedings of the 2014 Australasian Document Computing Symposium, 2014

Overview of the 2014 ALTA Shared Task: Identifying Expressions of Locations in Tweets.

[BibT_eX]

[DOI]

Diego Mollá

Proceedings of the Australasian Language Technology Association Workshop, 2014

2013

Location extraction from disaster-related microblogs.

[BibT_eX]

[DOI]

John Lingad

Proceedings of the 22nd International World Wide Web Conference, 2013

Classifying microblogs for disasters.

[BibT_eX]

[DOI]

Proceedings of the Australasian Document Computing Symposium, 2013

2012

Quantifying the impact of concept recognition on biomedical information retrieval.

[BibT_eX]

[DOI]

Justin Zobel

Inf. Process. Manag., 2012

Searching and Filtering Tweets: CSIRO at the TREC 2012 Microblog Track.

[BibT_eX]

[DOI]

Paul Thomas

Proceedings of The Twenty-First Text REtrieval Conference, 2012

ESA: emergency situation awareness via microbloggers.

[BibT_eX]

[DOI]

Proceedings of the 21st ACM International Conference on Information and Knowledge Management, 2012

2011

Machine transliteration survey.

[BibT_eX]

[DOI]

ACM Comput. Surv., 2011

Search for Medical Records: NICTA at TREC 2011 Medical Track.

[BibT_eX]

[DOI]

Proceedings of The Twentieth Text REtrieval Conference, 2011

Domain expert topic familiarity and search behavior.

[BibT_eX]

[DOI]

Proceedings of the Proceeding of the 34th International ACM SIGIR Conference on Research and Development in Information Retrieval, 2011

Diverse retrieval via greedy optimization of expected 1-call@k in a latent subtopic relevance model.

[BibT_eX]

[DOI]

Proceedings of the 20th ACM Conference on Information and Knowledge Management, 2011

2010

Visualizing search results and document collections using topic maps.

[BibT_eX]

[DOI]

J. Web Semant., 2010

Boolean versus ranked querying for biomedical systematic reviews.

[BibT_eX]

[DOI]

BMC Medical Informatics Decis. Mak., 2010

Evaluating topic models for digital libraries.

[BibT_eX]

[DOI]

Proceedings of the 2010 Joint International Conference on Digital Libraries, 2010

Best Topic Word Selection for Topic Labelling.

[BibT_eX]

[DOI]

Proceedings of the COLING 2010, 2010

2009

The challenge of high recall in biomedical systematic search.

[BibT_eX]

[DOI]

Proceedings of the Proceeding of the 3rd International Workshop on Data and Text Mining in Bioinformatics, 2009

Using Topic Models to Interpret MEDLINE's Medical Subject Headings.

[BibT_eX]

[DOI]

David Newman

Lawrence Cavedon

Proceedings of the AI 2009: Advances in Artificial Intelligence, 2009

2007

Corpus Effects on the Evaluation of Automated Transliteration Systems.

[BibT_eX]

[DOI]

Proceedings of the ACL 2007, 2007

Collapsed Consonant and Vowel Models: New Approaches for English-Persian Transliteration and Back-Transliteration.

[BibT_eX]

[DOI]

Proceedings of the ACL 2007, 2007

2006

English to Persian Transliteration.

[BibT_eX]

[DOI]