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ORCIDBeatrice Alex
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- affiliation: University of Edinburgh, UK
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2020 – today
- 2024
[j18]Matús Falis, Aryo Pradipta Gema
, Hang Dong, Luke Daines, Siddharth Basetti, Michael Holder, Rose S. Penfold, Alexandra Birch, Beatrice Alex:
Can GPT-3.5 generate and code discharge summaries? J. Am. Medical Informatics Assoc. 31(10): 2284-2293 (2024)- [c33]Aryo Gema, Pasquale Minervini, Luke Daines, Tom Hope, Beatrice Alex:
Parameter-Efficient Fine-Tuning of LLaMA for the Clinical Domain. ClinicalNLP@NAACL 2024: 91-104 - [c32]Aryo Gema, Chaeeun Lee, Pasquale Minervini, Luke Daines, T. Ian Simpson, Beatrice Alex:
Edinburgh Clinical NLP at MEDIQA-CORR 2024: Guiding Large Language Models with Hints. ClinicalNLP@NAACL 2024: 488-501 - [c31]Imane Guellil, Salomé Andres, Bruce Guthrie, Atul Anand, Huayu Zhang, Abul Kalam Hasan, Honghan Wu, Beatrice Alex:
Enhancing Natural Language Processing Capabilities in Geriatric Patient Care: An Annotation Scheme and Guidelines. NLDB (2) 2024: 207-217 - [c30]Aryo Gema, Giwon Hong, Pasquale Minervini, Luke Daines, Beatrice Alex:
Edinburgh Clinical NLP at SemEval-2024 Task 2: Fine-tune your model unless you have access to GPT-4. SemEval@NAACL 2024: 1894-1904 - [i16]Matús Falis, Aryo Pradipta Gema, Hang Dong, Luke Daines, Siddharth Basetti, Michael Holder, Rose S. Penfold, Alexandra Birch, Beatrice Alex:
Can GPT-3.5 Generate and Code Discharge Summaries? CoRR abs/2401.13512 (2024) - [i15]Aryo Pradipta Gema, Giwon Hong, Pasquale Minervini, Luke Daines, Beatrice Alex:
Edinburgh Clinical NLP at SemEval-2024 Task 2: Fine-tune your model unless you have access to GPT-4. CoRR abs/2404.00484 (2024) - [i14]Aryo Pradipta Gema, Chaeeun Lee, Pasquale Minervini, Luke Daines, T. Ian Simpson, Beatrice Alex:
Edinburgh Clinical NLP at MEDIQA-CORR 2024: Guiding Large Language Models with Hints. CoRR abs/2405.18028 (2024) - [i13]Abul Hasan, Jinge Wu, Quang Ngoc Nguyen, Salomé Andres, Imane Guellil, Huayu Zhang, Arlene Casey, Beatrice Alex, Bruce Guthrie, Honghan Wu:
Infusing clinical knowledge into tokenisers for language models. CoRR abs/2406.14312 (2024) - [i12]Giorgos Lysandrou, Roma English Owen, Vanja Popovic, Grant Le Brun, Aryo Pradipta Gema, Beatrice Alex, Elizabeth A. L. Fairley:
A Comparative Study on Patient Language across Therapeutic Domains for Effective Patient Voice Classification in Online Health Discussions. CoRR abs/2407.16593 (2024) - [i11]Andreas Grivas, Claire Grover, Richard Tobin, Clare Llewellyn, Eleojo Oluwaseun Abubakar, Chunyu Zheng, Chris Dibben, Alan Marshall, David J. Pearce, Beatrice Alex:
Perceptions of Edinburgh: Capturing Neighbourhood Characteristics by Clustering Geoparsed Local News. CoRR abs/2409.11505 (2024) - 2023
- [j17]Arlene Casey, Emma M. Davidson, Claire Grover, Richard Tobin, Andreas Grivas, Huayu Zhang, Patrick Schrempf, Alison Q. O'Neil, Liam Lee, Michael Walsh, Freya Pellie, Karen Ferguson, Vera Cvoro, Honghan Wu, Heather Whalley, Grant Mair, William Whiteley, Beatrice Alex:
Understanding the performance and reliability of NLP tools: a comparison of four NLP tools predicting stroke phenotypes in radiology reports. Frontiers Digit. Health 5 (2023) - [j16]Huayu Zhang, Arlene Casey, Imane Guellil, Víctor Suárez-Paniagua, Clare Macrae, Charis Marwick, Honghan Wu, Bruce Guthrie, Beatrice Alex:
FLAP: a framework for linking free-text addresses to the Ordnance Survey Unique Property Reference Number database. Frontiers Digit. Health 5 (2023) - [j15]Hang Dong, Víctor Suárez-Paniagua, Huayu Zhang, Minhong Wang, Arlene Casey, Emma M. Davidson, Jiaoyan Chen, Beatrice Alex, William Whiteley, Honghan Wu:
Ontology-driven and weakly supervised rare disease identification from clinical notes. BMC Medical Informatics Decis. Mak. 23(1): 86 (2023) - [c29]Lucy Havens, Rachel Hosker, Beatrice Alex, Benjamin Bach, Melissa Terras:
Collaboration Across the Archival and Computational Sciences to Address Legacies of Gender Bias in Descriptive Metadata. DH 2023 - [c28]Jesse Phitidis, Alison Q. O'Neil, Stewart Wiseman, David Alexander Dickie, Eleni Sakka, Agniete Kampaite, William Whiteley, Miguel O. Bernabeu, Beatrice Alex, Joanna M. Wardlaw, Maria del C. Valdés Hernández:
Segmentation of White Matter Hyperintensities and Ischaemic Stroke Lesions in Structural MRI. MIUA 2023: 3-17 - [i10]Aryo Pradipta Gema, Luke Daines, Pasquale Minervini, Beatrice Alex:
Parameter-Efficient Fine-Tuning of LLaMA for the Clinical Domain. CoRR abs/2307.03042 (2023) - [i9]Giorgos Lysandrou, Roma English Owen, Vanja Popovic, Grant Le Brun, Beatrice Alex, Elizabeth A. L. Fairley:
Classifying patient voice in social media data using neural networks: A comparison of AI models on different data sources and therapeutic domains. CoRR abs/2312.03747 (2023) - 2022
- [j14]Hang Dong, Matús Falis, William Whiteley, Beatrice Alex, Joshua Matterson, Shaoxiong Ji, Jiaoyan Chen, Honghan Wu:
Automated clinical coding: what, why, and where we are? npj Digit. Medicine 5 (2022) - [j13]Honghan Wu, Minhong Wang, Jinge Wu, Farah Francis, Yun-Hsuan Chang, Alex Shavick, Hang Dong, Michael Tin Chung Poon, Natalie K. Fitzpatrick, Adam P. Levine, Luke T. Slater, Alex Handy, Andreas Karwath, Georgios V. Gkoutos, Claude Chelala, Anoop D. Shah, Robert Stewart, Nigel Collier, Beatrice Alex, William Whiteley, Cathie Sudlow, Angus Roberts, Richard J. B. Dobson:
A survey on clinical natural language processing in the United Kingdom from 2007 to 2022. npj Digit. Medicine 5 (2022) - [c27]Matús Falis, Hang Dong, Alexandra Birch, Beatrice Alex:
Horses to Zebras: Ontology-Guided Data Augmentation and Synthesis for ICD-9 Coding. BioNLP@ACL 2022: 389-401 - [c26]Imane Guellil, Jinge Wu, Honghan Wu, Tony Sun, Beatrice Alex:
Edinburgh_UCL_Health@SMM4H'22: From Glove to Flair for handling imbalanced healthcare corpora related to Adverse Drug Events, Change in medication and self-reporting vaccination. SMM4H@COLING 2022: 148-152 - [c25]Lucy Havens, Benjamin Bach, Melissa Terras, Beatrice Alex:
Beyond Explanation: A Case for Exploratory Text Visualizations of Non-Aggregated, Annotated Datasets. NLPerspectives@LREC 2022: 73-82 - [i8]Hang Dong, Matús Falis, William Whiteley, Beatrice Alex, Shaoxiong Ji, Jiaoyan Chen, Honghan Wu:
Automated Clinical Coding: What, Why, and Where We Are? CoRR abs/2203.11092 (2022) - [i7]Hang Dong, Víctor Suárez-Paniagua, Huayu Zhang, Minhong Wang, Arlene Casey, Emma M. Davidson, Jiaoyan Chen, Beatrice Alex, William Whiteley, Honghan Wu:
Ontology-Based and Weakly Supervised Rare Disease Phenotyping from Clinical Notes. CoRR abs/2205.05656 (2022) - 2021
- [j12]Emma M. Davidson, Michael Tin Chung Poon, Arlene Casey, Andreas Grivas, Daniel Duma, Hang Dong, Víctor Suárez-Paniagua, Claire Grover, Richard Tobin, Heather Whalley, Honghan Wu, Beatrice Alex, William Whiteley:
The reporting quality of natural language processing studies: systematic review of studies of radiology reports. BMC Medical Imaging 21(1): 142 (2021) - [j11]Arlene Casey, Mike Bennett, Richard Tobin, Claire Grover, Iona Walker, Lukas Engelmann, Beatrice Alex:
Plague Dot Text: Text mining and annotation of outbreak reports of the Third Plague Pandemic (1894-1952). J. Data Min. Digit. Humanit. 2021 (2021) - [j10]Arlene Casey, Emma M. Davidson, Michael Tin Chung Poon, Hang Dong, Daniel Duma, Andreas Grivas, Claire Grover, Víctor Suárez-Paniagua, Richard Tobin, William Whiteley, Honghan Wu, Beatrice Alex:
A systematic review of natural language processing applied to radiology reports. BMC Medical Informatics Decis. Mak. 21(1): 179 (2021) - [j9]Beatrice Alex, Donald Whyte, Daniel Duma, Roma English Owen, Elizabeth A. L. Fairley:
Classifying patient and professional voice in social media health posts. BMC Medical Informatics Decis. Mak. 21(1): 244 (2021) - [j8]D. Sykes, Andreas Grivas, Claire Grover, Richard Tobin, Cathie Sudlow, William Whiteley, Andrew M. McIntosh, Heather Whalley, Beatrice Alex:
Comparison of rule-based and neural network models for negation detection in radiology reports. Nat. Lang. Eng. 27(2): 203-224 (2021) - [c24]Rosa Filgueira, Claire Grover, Vasilios Karaiskos, Beatrice Alex, Sarah Van Eyndhoven, Lisa Gotthard, Melissa Terras:
Extending defoe for the Efficient Analysis of Historical Texts at Scale. e-Science 2021: 21-29 - [c23]Matús Falis, Hang Dong, Alexandra Birch, Beatrice Alex:
CoPHE: A Count-Preserving Hierarchical Evaluation Metric in Large-Scale Multi-Label Text Classification. EMNLP (1) 2021: 907-912 - [i6]Arlene Casey, Emma M. Davidson, Michael Tin Chung Poon, Hang Dong, Daniel Duma, Andreas Grivas, Claire Grover, Víctor Suárez-Paniagua, Richard Tobin, William Whiteley, Honghan Wu, Beatrice Alex:
A Systematic Review of Natural Language Processing Applied to Radiology Reports. CoRR abs/2102.09553 (2021) - [i5]Beatrice Alex, Clare Llewellyn, Pawel Michal Orzechowski, Maria Boutchkova:
The Online Pivot: Lessons Learned from Teaching a Text and Data Mining Course in Lockdown, Enhancing online Teaching with Pair Programming and Digital Badges. CoRR abs/2105.07847 (2021) - [i4]Matús Falis, Hang Dong, Alexandra Birch, Beatrice Alex:
CoPHE: A Count-Preserving Hierarchical Evaluation Metric in Large-Scale Multi-Label Text Classification. CoRR abs/2109.04853 (2021) - 2020
- [c22]Andreas Grivas, Beatrice Alex, Claire Grover, Richard Tobin, William Whiteley:
Not a cute stroke: Analysis of Rule- and Neural Network-based Information Extraction Systems for Brain Radiology Reports. LOUHI@EMNLP 2020: 24-37 - [i3]Arlene Casey, Mike Bennett, Richard Tobin, Claire Grover, Iona Walker, Lukas Engelmann, Beatrice Alex:
Plague Dot Text: Text mining and annotation of outbreak reports of the Third Plague Pandemic (1894-1952). CoRR abs/2002.01415 (2020) - [i2]Lucy Havens, Melissa Terras, Benjamin Bach, Beatrice Alex:
Situated Data, Situated Systems: A Methodology to Engage with Power Relations in Natural Language Processing Research. CoRR abs/2011.05911 (2020)
2010 – 2019
- 2019
- [j7]Beatrice Alex, Claire Grover, Richard Tobin, Cathie Sudlow, Grant Mair, William Whiteley:
Text mining brain imaging reports. J. Biomed. Semant. 10(1): 23:1-23:11 (2019) - [j6]Beatrice Alex, Claire Grover, Richard Tobin, Jon Oberlander:
Geoparsing historical and contemporary literary text set in the City of Edinburgh. Lang. Resour. Evaluation 53(4): 651-675 (2019) - [j5]Emily Wheater, Grant Mair, Cathie Sudlow, Beatrice Alex, Claire Grover, William Whiteley:
A validated natural language processing algorithm for brain imaging phenotypes from radiology reports in UK electronic health records. BMC Medical Informatics Decis. Mak. 19(1): 184:1-184:11 (2019) - [c21]Aurora Constantin, Catherine Lai, Elaine Farrow, Beatrice Alex, Ruth Pel-Littel, Henk Herman Nap, Johan Jeuring:
"Why is the Doctor a Man": Reactions of Older Adults to a Virtual Training Doctor. CHI Extended Abstracts 2019 - [c20]Arlene Casey, Mike Bennett, Richard Tobin, Claire Grover, Lukas Engelmann, Beatrice Alex:
Plague Dot Text: Text Mining and Annotation of Outbreak Reports of the Third Plague Pandemic (1894-1952). HistoInformatics@TPDL 2019: 50-59 - [c19]Catherine Lai, Beatrice Alex, Johanna D. Moore, Leimin Tian, Tatsuro Hori, Gianpiero Francesca:
Detecting Topic-Oriented Speaker Stance in Conversational Speech. INTERSPEECH 2019: 46-50 - [e5]Beatrice Alex, Stefania Degaetano-Ortlieb, Anna Kazantseva, Nils Reiter, Stan Szpakowicz:
Proceedings of the 3rd Joint SIGHUM Workshop on Computational Linguistics for Cultural Heritage, Social Sciences, Humanities and Literature, LaTeCH@NAACL-HLT 2019, Minneapolis, MN, USA, June 7, 2019. Association for Computational Linguistics 2019, ISBN 978-1-950737-00-0 [contents] - [i1]Philip John Gorinski, Honghan Wu, Claire Grover, Richard Tobin, Conn Talbot, Heather Whalley, Cathie Sudlow, William Whiteley, Beatrice Alex:
Named Entity Recognition for Electronic Health Records: A Comparison of Rule-based and Machine Learning Approaches. CoRR abs/1903.03985 (2019) - 2018
- [e4]Beatrice Alex, Stefania Degaetano-Ortlieb, Anna Feldman, Anna Kazantseva, Nils Reiter, Stan Szpakowicz:
Proceedings of the Second Joint SIGHUM Workshop on Computational Linguistics for Cultural Heritage, Social Sciences, Humanities and Literature, LaTeCH@COLING 2018, Santa Fe, New Mexico, USA, August 25, 2018. Association for Computational Linguistics 2018, ISBN 978-1-948087-61-2 [contents] - 2017
- [j4]Beatrice Alex, Claire Grover, Jon Oberlander, Tara Thomson, Miranda Anderson, James Loxley, Uta Hinrichs, Ke Zhou:
Palimpsest: Improving assisted curation of loco-specific literature. Digit. Scholarsh. Humanit. 32(suppl_1): i4-i16 (2017) - [e3]Beatrice Alex, Stefania Degaetano-Ortlieb, Anna Feldman, Anna Kazantseva, Nils Reiter, Stan Szpakowicz:
Proceedings of the Joint SIGHUM Workshop on Computational Linguistics for Cultural Heritage, Social Sciences, Humanities and Literature, LaTeCH@ACL 2017, Vancouver, Canada, August 4, 2017. Association for Computational Linguistics 2017, ISBN 978-1-945626-58-6 [contents] - 2016
- [c18]Beatrice Alex, Clare Llewellyn, Claire Grover, Jon Oberlander, Richard Tobin:
Homing in on Twitter Users: Evaluating an Enhanced Geoparser for User Profile Locations. LREC 2016 - [e2]Beatrice Alex, Nils Reiter:
Proceedings of the 10th SIGHUM Workshop on Language Technology for Cultural Heritage, Social Sciences, and Humanities, LaTeCH@ACL 2016, August 11, 2016, Berlin, Germany. The Association for Computer Linguistics 2016, ISBN 978-1-945626-09-8 [contents] - 2015
- [j3]Beatrice Alex, Kate Byrne, Claire Grover, Richard Tobin:
Adapting the Edinburgh Geoparser for Historical Georeferencing. Int. J. Humanit. Arts Comput. 9(1): 15-35 (2015) - [j2]Uta Hinrichs, Beatrice Alex, Jim Clifford, Andrew Watson, Aaron J. Quigley, Ewan Klein, Colin Coates:
Trading Consequences: A Case Study of Combining Text Mining and Visualization to Facilitate Document Exploration. Digit. Scholarsh. Humanit. 30(Suppl-1): i50-i75 (2015) - [c17]Clare Llewellyn, Claire Grover, Beatrice Alex, Jon Oberlander, Richard Tobin:
Extracting a Topic Specific Dataset from a Twitter Archive. TPDL 2015: 364-367 - [e1]Kalliopi Zervanou, Marieke van Erp, Beatrice Alex:
Proceedings of the 9th SIGHUM Workshop on Language Technology for Cultural Heritage, Social Sciences, and Humanities, LaTeCH@ACL 2015, July 30, 2015, Beijing, China. The Association for Computer Linguistics 2015, ISBN 978-1-941643-63-1 [contents] - 2014
- [c16]Beatrice Alex, Kate Byrne, Claire Grover, Richard Tobin:
A Web-based Geo-resolution Annotation and Evaluation Tool. LAW@COLING 2014: 59-63 - [c15]Beatrice Alex, John Burns:
Estimating and rating the quality of optically character recognised text. DATeCH 2014: 97-102 - [c14]Uta Hinrichs, Beatrice Alex, Jim Clifford, Aaron Quigley:
Trading Consequences: A Case Study of Combining Text Mining & Visualisation to Facilitate Document Exploration. DH 2014 - [c13]Ewan Klein, Beatrice Alex, Jim Clifford:
Bootstrapping a historical commodities lexicon with SKOS and DBpedia. LaTeCH@EACL 2014: 13-21 - 2012
- [c12]Beatrice Alex, Claire Grover, Ewan Klein, Richard Tobin:
Digitised historical text: Does it have to be mediOCRe?. KONVENS 2012: 401-409 - 2010
- [c11]Beatrice Alex, Claire Grover, Rongzhou Shen, Mijail A. Kabadjov:
Agile Corpus Annotation in Practice: An Overview of Manual and Automatic Annotation of CVs. Linguistic Annotation Workshop 2010: 29-37 - [c10]Claire Grover, Richard Tobin, Beatrice Alex, Kate Byrne:
Edinburgh-LTG: TempEval-2 System Description. SemEval@ACL 2010: 333-336
2000 – 2009
- 2008
- [b1]Beatrice Alex:
Automatic detection of English inclusions in mixed-lingual text with an application to parsing. University of Edinburgh, UK, 2008 - [c9]Beatrice Alex:
Comparing Corpus-based to Web-based Lookup Techniques for Automatic English Inclusion Detection. LREC 2008 - [c8]Barry Haddow, Beatrice Alex:
Exploiting Multiply Annotated Corpora in Biomedical Information Extraction Tasks. LREC 2008 - [c7]Beatrice Alex, Claire Grover, Barry Haddow, Mijail Kabadjor, Ewan Klein, Michael Matthews, Stuart Roebuck, Richard Tobin, Xinglong Wang:
Assisted Curation: Does Text Mining Really Help?. Pacific Symposium on Biocomputing 2008: 556-567 - 2007
- [c6]Beatrice Alex, Barry Haddow, Claire Grover:
Recognising Nested Named Entities in Biomedical Text. BioNLP@ACL 2007: 65-72 - [c5]Beatrice Alex, Amit Dubey, Frank Keller:
Using Foreign Inclusion Detection to Improve Parsing Performance. EMNLP-CoNLL 2007: 151-160 - 2006
- [c4]Beatrice Alex, Malvina Nissim, Claire Grover:
The Impact of Annotation on the Performance of Protein Tagging in Biomedical Text. LREC 2006: 595-600 - 2005
- [j1]Jenny Rose Finkel, Shipra Dingare, Christopher D. Manning, Malvina Nissim, Beatrice Alex, Claire Grover:
Exploring the boundaries: gene and protein identification in biomedical text. BMC Bioinform. 6(S-1) (2005) - [c3]Beatrice Alex:
An Unsupervised System for Identifying English Inclusions in German Text. ACL 2005: 133-138 - [c2]Ben Hachey, Beatrice Alex, Markus Becker:
Investigating the Effects of Selective Sampling on the Annotation Task. CoNLL 2005: 144-151 - 2004
- [c1]Kisuh Ahn, Beatrice Alex, Johan Bos, Tiphaine Dalmas, Jochen L. Leidner, Matthew Smillie:
Cross-Lingual Question Answering Using Off-the-Shelf Machine Translation. CLEF 2004: 446-457
Coauthor Index
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