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A list of all the posts and pages found on the site. For you robots out there is an XML version available for digesting as well.

Pages

Posts

Future Blog Post

less than 1 minute read

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This post will show up by default. To disable scheduling of future posts, edit config.yml and set future: false.

Blog Post number 4

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This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

Blog Post number 3

less than 1 minute read

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This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

Blog Post number 2

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

Blog Post number 1

less than 1 minute read

Published:

This is a sample blog post. Lorem ipsum I can’t remember the rest of lorem ipsum and don’t have an internet connection right now. Testing testing testing this blog post. Blog posts are cool.

portfolio

publications

Using natural language processing and VetCompass to understand antimicrobial usage patterns in Australia

Published in Australian veterinary journal, 2019

In this paper we develop and test machine learning and rules-based methods in extracting antimicrobials used in clinical records stored within VetCompass from over 180 clinics accross Australia.

Recommended citation: Brian Hur, Laura Y. Hardefeldt, Karin Verspoor, Timothy Baldwin and James R Gilkerson (2019) Using Natural Language Processing and VetCompass to understand antimicrobial usage patterns in Australia, Australian Veterinary Journal 97(8), pp. 298—300. https://pubmed.ncbi.nlm.nih.gov/31209869/

Describing the Antimicrobial Usage Patterns of Companion Animal Veterinary Practices; Free Text Analysis of more than 4.4 Million Consultation Records

Published in PLOS ONE, 2020

The aim of this study is to describe how frequently antimicrobials were used in veterinary consultations and identify the most frequently used antimicrobials.

Recommended citation: Hur, Brian A., Laura Y. Hardefeldt, Karin M. Verspoor, Timothy Baldwin, and James R Gilkerson (2020) Describing the Antimicrobial Usage Patterns of Companion Animal Veterinary Practices; Free Text Analysis of more than 4.4 Million Consultation Records, PLoS ONE 15(3): e0230049. https://doi.org/10.1371/journal.pone.0230049

Domain Adaptation and Instance Selection for Disease Syndrome Classification over Veterinary Clinical Notes

Published in 19th SIGBioMed Workshop on Biomedical Language Processing (BioNLP 2020) @ ACL 2020, 2020

We propose a document classification approach to determine the reason for administration of a given drug, with particular focus on domain adaptation from one drug to another, and instance selection to minimize annotation effort.

Recommended citation: Hur, Brian, Timothy Baldwin, Karin Verspoor, Laura Hardefeldt and James Gilkerson (2020) Domain Adaptation and Instance Selection for Disease Syndrome Classification over Veterinary Clinical Notes, In Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing (BioNLP 2020), pp. 156—166. https://www.aclweb.org/anthology/2020.bionlp-1.17/

Use of cefovecin in dogs and cats attending first-opinion veterinary practices in Australia

Published in Veterinary Record, 2020

The authors describe the common indications for cefovecin use in dogs and cats, and the frequency of culture and susceptibility testing

Recommended citation: Hardefeldt, Laura Y, Brian Hur, Karin Verspoor, Timothy Baldwin, Kirsten E Bailey, Riata Scarborough, Suzanna Richards, Helen Bilman-Jacobe, Glenn F Browning and James R Gilkerson (2020) Use of cefovecin in dogs and cats attending first-opinion veterinary practices in Australia, Veterinary Record. https://pubmed.ncbi.nlm.nih.gov/32826347/

A Multi-pass Sieve for Clinical Concept Normalization

Published in Traitement Automatique des Langues, 2021

We present a rule-based multipass sieve approach incorporating both exact and approximate matching based on dictionaries, and experiment with back-translation as a means of data augmentation.

Recommended citation: Wang, Yuxia, Brian Hur, Karin Verspoor and Timothy Baldwin (2021) A Multi-pass Sieve for Clinical Concept Normalization, Traitement Automatique des Langues 2020 Volume 61 Numéro 2. https://www.atala.org/sites/default/files/TAL-61-2-2_Wang.pdf

talks

Using AI to Explore What Drugs are Being Given and Why Out of Clinical Records

Published:

This talk discussed our work with VetCompass Australia in extracting medications and the reason for administration from clinical records. Our work demonstrates an end to end approach using artificial intelligence to understand the reason for giving these drugs out of raw clinical text on a population level. This is done through a combination of big data, rules-based algorithms and novel deep learning models.

teaching

Foundations of Computing

Undergraduate Course, University of Melbourne, Computing and Information Systems, 2019

Ran labs and guided students through Foundations of Computing where we covered pogramming constructs; fundamental data structures; abstraction; basic program structures; algorithmic problem solving, testing and debugging.

Text and Web Analytics

Graduate course, Melbourne Business School, 2019

Gave lectures, ran labs and guided students to build their models and algorithms for students of the Masters of Business Anlaytics course at the Melbourne Business school. This course was an adapted version of the Web Search and Text Anlysis course.