Sarvnaz Karimi

Publication Activity (10 Years)

Years Active: 2006-2024
Publications (10 Years): 61

Top Topics

Event Extraction

Adverse Drug Reaction

Top Venues

J. Biomed. Informatics

Publications

Xiang Dai, Sarvnaz Karimi, Nathan O'Callaghan
Identifying Health Risks from Family History: A Survey of Natural Language Processing Techniques. CoRR (2024)
Crispin Almodovar, Fariza Sabrina, Sarvnaz Karimi, Salahuddin A. Azad
LogFiT: Log Anomaly Detection Using Fine-Tuned Language Models. IEEE Trans. Netw. Serv. Manag. 21 (2) (2024)
Xiang Dai, Sarvnaz Karimi, Abeed Sarker, Ben Hachey, Cécile Paris
MultiADE: A Multi-domain Benchmark for Adverse Drug Event Extraction. CoRR (2024)
Maciej Rybinski, Stephen Wan, Sarvnaz Karimi, Cécile Paris, Brian Jin, Neil I. Huth, Peter J. Thorburn, Dean P. Holzworth
SciHarvester: Searching Scientific Documents for Numerical Values. SIGIR (2023)
Skyler Zou, Xiang Dai, Grant Brinkworth, Pennie Taylor, Sarvnaz Karimi
Can Social Media Inform Dietary Approaches for Health Management? A Dataset and Benchmark for Low-Carb Diet. BioNLP@ACL (2023)
Maciej Rybinski, Vincent Nguyen, Sarvnaz Karimi
A Self-Learning Resource-Efficient Re-Ranking Method for Clinical Trials Search. CIKM (2023)
Xiang Dai, Sarvnaz Karimi, Stephen Wan
Rethinking the Role of Entity Type in Relation Classification. IJCNLP (1) (2023)
Vincent Nguyen, Sarvnaz Karimi, Zhenchang Xing
DeBEIR: A Python Package for Dense Bi-Encoder Information Retrieval. J. Open Source Softw. 8 (87) (2023)
Mong Yuan Sim, Xiang Dai, Maciej Rybinski, Sarvnaz Karimi
CSIRO Data61 Team at BioLaySumm Task 1: Lay Summarisation of Biomedical Research Articles Using Generative Models. BioNLP@ACL (2023)
Stefan Hajkowicz, Conrad Sanderson, Sarvnaz Karimi, Alexandra Bratanova, Claire K. Naughtin
Artificial intelligence adoption in the physical sciences, natural sciences, life sciences, social sciences and the arts and humanities: A bibliometric analysis of research publications from 1960-2021. CoRR (2023)
Vincent Nguyen, Sarvnaz Karimi, Maciej Rybinski, Zhenchang Xing
MedRedQA for Medical Consumer Question Answering: Dataset, Tasks, and Neural Baselines. IJCNLP (1) (2023)
Vincent Nguyen, Maciej Rybinski, Sarvnaz Karimi, Zhenchang Xing
Search like an expert: Reducing expertise disparity using a hybrid neural index for COVID-19 queries. J. Biomed. Informatics 127 (2022)
Vincent Nguyen, Maciej Rybinski, Sarvnaz Karimi
Matching a Patient from An Admission Note to Clinical Trials: Experiments with Query Generation and Neural-Ranking. TREC (2022)
Maciej Rybinski, Liam Watts, Sarvnaz Karimi
A2A-API: A Prototype for Biomedical Information Retrieval Research and Benchmarking. SIGIR (2022)
Xiang Dai, Sarvnaz Karimi
Detecting Entities in the Astrophysics Literature: A Comparison of Word-based and Span-based Entity Recognition Methods. CoRR (2022)
Maciej Rybinski, Sarvnaz Karimi
Will Sorafenib Help?: Treatment-aware Reranking in Precision Medicine Search. CIKM (2021)
Sonit Singh, Sarvnaz Karimi, Kevin Ho-Shon, Len Hamey
Show, tell and summarise: learning to generate and summarise radiology findings from medical images. Neural Comput. Appl. 33 (13) (2021)
Xiang Dai, Maciej Rybinski, Sarvnaz Karimi
SearchEHR: A Family History Search System for Clinical Decision Support. CIKM (2021)
Maciej Rybinski, Vincent Nguyen, Sarvnaz Karimi
CSIROmed Team Report of TREC 2021 Clinical Trials track: Experiments with BERT Reranking Methods. TREC (2021)
Maciej Rybinski, Sarvnaz Karimi, Aleney Khoo
Science2Cure: A Clinical Trial Search Prototype. SIGIR (2021)
Xiang Dai, Sarvnaz Karimi, Ben Hachey, Cécile Paris
An Effective Transition-based Model for Discontinuous NER. CoRR (2020)
Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris, C. Raina MacIntyre
Survey of Text-based Epidemic Intelligence: A Computational Linguistics Perspective. ACM Comput. Surv. 52 (6) (2020)
Maciej Rybinski, Sarvnaz Karimi
CSIROmed at TREC Precision Medicine 2020. TREC (2020)
Vincent Nguyen, Maciej Rybinski, Sarvnaz Karimi, Zhenchang Xing
Searching Scientific Literature for Answers on COVID-19 Questions. CoRR (2020)
Xiang Dai, Sarvnaz Karimi, Ben Hachey, Cécile Paris
Cost-effective Selection of Pretraining Data: A Case Study of Pretraining BERT on Social Media. EMNLP (Findings) (2020)
Maciej Rybinski, Sarvnaz Karimi, Vincent Nguyen, Cécile Paris
A2A: a platform for research in biomedical literature search. BMC Bioinform. (19) (2020)
Xiang Dai, Sarvnaz Karimi, Ben Hachey, Cécile Paris
An Effective Transition-based Model for Discontinuous NER. ACL (2020)
Maciej Rybinski, Jerry Xu, Sarvnaz Karimi
Clinical trial search: Using biomedical language understanding models for re-ranking. J. Biomed. Informatics 109 (2020)
Wenyi Tay, Xiuzhen Zhang, Sarvnaz Karimi
Beyond mean rating: Probabilistic aggregation of star ratings based on helpfulness. J. Assoc. Inf. Sci. Technol. 71 (7) (2020)
Xiang Dai, Sarvnaz Karimi, Ben Hachey, Cécile Paris
Cost-effective Selection of Pretraining Data: A Case Study of Pretraining BERT on Social Media. CoRR (2020)
Hamed Hassanzadeh, Sarvnaz Karimi, Anthony N. Nguyen
Matching patients to clinical trials using semantically enriched document representation. J. Biomed. Informatics 105 (2020)
Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris, C. Raina MacIntyre
Survey of Text-based Epidemic Intelligence: A Computational Linguistic Perspective. CoRR (2019)
Nicky Ringland, Xiang Dai, Ben Hachey, Sarvnaz Karimi, Cécile Paris, James R. Curran
NNE: A Dataset for Nested Named Entity Recognition in English Newswire. CoRR (2019)
Sonit Singh, Sarvnaz Karimi, Kevin Ho-Shon, Len Hamey
Biomedical Concept Detection in Medical Images: MQ-CSIRO at 2019 ImageCLEFmed Caption Task. CLEF (Working Notes) (2019)
Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris, C. Raina MacIntyre
A Comparison of Word-based and Context-based Representations for Classification Problems in Health Informatics. CoRR (2019)
Vincent Nguyen, Sarvnaz Karimi, Zhenchang Xing
Investigating the Effect of Lexical Segmentation in Transformer-based Models on Medical Datasets. ALTA (2019)
Maciej Rybinski, Sarvnaz Karimi, Cécile Paris
CSIRO at 2019 TREC Precision Medicine Track. TREC (2019)
Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris, C. Raina MacIntyre
Does Multi-Task Learning Always Help?: An Evaluation on Health Informatics. ALTA (2019)
Nicky Ringland, Xiang Dai, Ben Hachey, Sarvnaz Karimi, Cécile Paris, James R. Curran
NNE: A Dataset for Nested Named Entity Recognition in English Newswire. ACL (1) (2019)
Adith Iyer, Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris
Figurative Usage Detection of Symptom Words to Improve Personal Health Mention Detection. CoRR (2019)
Vincent Nguyen, Sarvnaz Karimi, Brian Jin
An Experimentation Platform for Precision Medicine. SIGIR (2019)
Sonit Singh, Sarvnaz Karimi, Kevin Ho-Shon, Len Hamey
From Chest X-Rays to Radiology Reports: A Multimodal Machine Learning Approach. DICTA (2019)
Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris, C. Raina MacIntyre
A Comparison of Word-based and Context-based Representations for Classification Problems in Health Informatics. BioNLP@ACL (2019)
Adith Iyer, Aditya Joshi, Sarvnaz Karimi, Ross Sparks, Cécile Paris
Figurative Usage Detection of Symptom Words to Improve Personal Health Mention Detection. ACL (1) (2019)
Xiang Dai, Sarvnaz Karimi, Ben Hachey, Cécile Paris
Using Similarity Measures to Select Pretraining Data for NER. CoRR (2019)
Wenyi Tay, Aditya Joshi, Xiuzhen Zhang, Sarvnaz Karimi, Stephen Wan
Red-faced ROUGE: Examining the Suitability of ROUGE for Opinion Summary Evaluation. ALTA (2019)
Vincent Nguyen, Sarvnaz Karimi, Zhenchang Xing
ANU-CSIRO at MEDIQA 2019: Question Answering Using Deep Contextual Knowledge. BioNLP@ACL (2019)
Xiang Dai, Sarvnaz Karimi, Ben Hachey, Cécile Paris
Using Similarity Measures to Select Pretraining Data for NER. NAACL-HLT (1) (2019)
Hamed Hassanzadeh, Anthony N. Nguyen, Sarvnaz Karimi, Kevin Chu
Transferability of artificial neural networks for clinical document classification across hospitals: A case study on abnormality detection from radiology reports. J. Biomed. Informatics 85 (2018)
Anthony N. Nguyen, Donna L. Truran, Madonna Kemp, Bevan Koopman, David Conlan, John O'Dwyer, Ming Zhang, Sarvnaz Karimi, Hamed Hassanzadeh, Michael Lawley, Damian J. Green
Computer-Assisted Diagnostic Coding: Effectiveness of an NLP-based approach using SNOMED CT to ICD-10 mappings. AMIA (2018)
Sarvnaz Karimi, Vincent Nguyen, Falk Scholer, Brian Jin, Sara Falamaki
A2A: Benchmark Your Clinical Decision Support Search. SIGIR (2018)
Aditya Joshi, Xiang Dai, Sarvnaz Karimi, Ross Sparks, Cécile Paris, C. Raina MacIntyre
Shot Or Not: Comparison of NLP Approaches for Vaccination Behaviour Detection. SMM4H@EMNLP (2018)
Vincent Nguyen, Sarvnaz Karimi, Sara Falamaki, Cécile Paris
Benchmarking Clinical Decision Support Search. CoRR (2018)
Sonit Singh, Kevin Ho-Shon, Sarvnaz Karimi, Len Hamey
Modality Classification and Concept Detection in Medical Images Using Deep Transfer Learning. IVCNZ (2018)
Vincent Nguyen, Sarvnaz Karimi, Sara Falamaki, Diego Mollá Aliod, Cécile Paris, Stephen Wan
CSIRO at 2017 TREC Precision Medicine Track. TREC (2017)
Xiang Dai, Sarvnaz Karimi, Cécile Paris
Medication and Adverse Event Extraction from Noisy Text. ALTA (2017)
Sarvnaz Karimi, Xiang Dai, Hamed Hassanzadeh, Anthony N. Nguyen
Automatic Diagnosis Coding of Radiology Reports: A Comparison of Deep Learning and Conventional Classification Methods. BioNLP (2017)
Sarvnaz Karimi, Sara Falamaki, Vincent Nguyen
CSIRO at TREC Clinical Decision Support Track. TREC (2016)
Gaya K. Jayasinghe, Sarvnaz Karimi, Melanie Ayre
Evaluation of Retrieval Algorithms for Expertise Search. ADCS (2016)
Chen Wang, Sarvnaz Karimi
Parallel Duplicate Detection in Adverse Drug Reaction Databases with Spark. EDBT (2016)
Alejandro Metke-Jimenez, Sarvnaz Karimi
Concept Identification and Normalisation for Adverse Drug Event Discovery in Medical Forums. BMDID@ISWC (2016)
Jie Yin, Sarvnaz Karimi, Andrew Lampert, Mark A. Cameron, Bella Robinson, Robert Power
Using Social Media to Enhance Emergency Situation Awareness: Extended Abstract. IJCAI (2015)
Sarvnaz Karimi, Jie Yin, Jiri Baum
Evaluation Methods for Statistically Dependent Text. Comput. Linguistics 41 (3) (2015)
Alejandro Metke-Jimenez, Sarvnaz Karimi
Concept Extraction to Identify Adverse Drug Reactions in Medical Forums: A Comparison of Algorithms. CoRR (2015)
Bevan Koopman, Sarvnaz Karimi, Anthony N. Nguyen, Rhydwyn McGuire, David Muscatello, Madonna Kemp, Donna Truran, Ming Zhang, Sarah Thackway
Automatic classification of diseases from free-text death certificates for real-time surveillance. BMC Medical Informatics Decis. Mak. 15 (2015)
Sarvnaz Karimi, Chen Wang, Alejandro Metke-Jimenez, Raj Gaire, Cécile Paris
Text and Data Mining Techniques in Adverse Drug Reaction Detection. ACM Comput. Surv. 47 (4) (2015)
Sarvnaz Karimi, Alejandro Metke-Jimenez, Anthony N. Nguyen
CADEminer: A System for Mining Consumer Reports on Adverse Drug Side Effects. ESAIR@CIKM (2015)
Sarvnaz Karimi, Alejandro Metke-Jimenez, Madonna Kemp, Chen Wang
Cadec: A corpus of adverse drug event annotations. J. Biomed. Informatics 55 (2015)
Sadegh Kharazmi, Sarvnaz Karimi, Falk Scholer, Adam Clark
A Study of Querying Behaviour of Expert and Non-expert Users of Biomedical Search Systems. ADCS (2014)
Diego Mollá, Sarvnaz Karimi
Overview of the 2014 ALTA Shared Task: Identifying Expressions of Locations in Tweets. ALTA (2014)
Alejandro Metke-Jimenez, Sarvnaz Karimi, Cécile Paris
Evaluation of text-processing algorithms for adverse drug event extraction from social media. SoMeRA@SIGIR (2014)
Chen Wang, Sarvnaz Karimi
Differences between social media and regulatory databases in adverse drug reaction discovery. SoMeRA@SIGIR (2014)
Jie Yin, Sarvnaz Karimi, John Lingad
Pinpointing Locational Focus in Microblogs. ADCS (2014)
Sarvnaz Karimi, Jie Yin, Cécile Paris
Classifying microblogs for disasters. ADCS (2013)
John Lingad, Sarvnaz Karimi, Jie Yin
Location extraction from disaster-related microblogs. WWW (Companion Volume) (2013)
Jie Yin, Sarvnaz Karimi, Bella Robinson, Mark A. Cameron
ESA: emergency situation awareness via microbloggers. CIKM (2012)
Sarvnaz Karimi, Justin Zobel, Falk Scholer
Quantifying the impact of concept recognition on biomedical information retrieval. Inf. Process. Manag. 48 (1) (2012)
Sarvnaz Karimi, Jie Yin, Paul Thomas
Searching and Filtering Tweets: CSIRO at the TREC 2012 Microblog Track. TREC (2012)
Sarvnaz Karimi, Falk Scholer, Adam Clark, Sadegh Kharazmi
Domain expert topic familiarity and search behavior. SIGIR (2011)
Sarvnaz Karimi, David Martínez, Sumukh Ghodke, Lawrence Cavedon, Hanna Suominen, Lumin Zhang
Search for Medical Records: NICTA at TREC 2011 Medical Track. TREC (2011)
Sarvnaz Karimi, Falk Scholer, Andrew Turpin
Machine transliteration survey. ACM Comput. Surv. 43 (3) (2011)
Scott Sanner, Shengbo Guo, Thore Graepel, Sadegh Kharazmi, Sarvnaz Karimi
Diverse retrieval via greedy optimization of expected 1-call@k in a latent subtopic relevance model. CIKM (2011)
Jey Han Lau, David Newman, Sarvnaz Karimi, Timothy Baldwin
Best Topic Word Selection for Topic Labelling. COLING (Posters) (2010)
David Newman, Timothy Baldwin, Lawrence Cavedon, Eric Huang, Sarvnaz Karimi, David Martínez, Falk Scholer, Justin Zobel
Visualizing search results and document collections using topic maps. J. Web Semant. 8 (2-3) (2010)
David Newman, Youn Noh, Edmund M. Talley, Sarvnaz Karimi, Timothy Baldwin
Evaluating topic models for digital libraries. JCDL (2010)
Sarvnaz Karimi, Stefan Pohl, Falk Scholer, Lawrence Cavedon, Justin Zobel
Boolean versus ranked querying for biomedical systematic reviews. BMC Medical Informatics Decis. Mak. 10 (2010)
David Newman, Sarvnaz Karimi, Lawrence Cavedon
Using Topic Models to Interpret MEDLINE's Medical Subject Headings. Australasian Conference on Artificial Intelligence (2009)
Sarvnaz Karimi, Justin Zobel, Stefan Pohl, Falk Scholer
The challenge of high recall in biomedical systematic search. DTMBIO (2009)
Sarvnaz Karimi, Falk Scholer, Andrew Turpin
Collapsed Consonant and Vowel Models: New Approaches for English-Persian Transliteration and Back-Transliteration. ACL (2007)
Sarvnaz Karimi, Andrew Turpin, Falk Scholer
Corpus Effects on the Evaluation of Automated Transliteration Systems. ACL (2007)
Sarvnaz Karimi, Andrew Turpin, Falk Scholer
English to Persian Transliteration. SPIRE (2006)