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ORCIDSophia Ananiadou
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- affiliation: University of Manchester, UK
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2020 – today
- 2024
[j123]Zheheng Luo
, Qianqian Xie, Sophia Ananiadou:
Factual consistency evaluation of summarization in the Era of large language models. Expert Syst. Appl. 254: 124456 (2024)- [j122]Zheheng Luo, Lei Liu, Sophia Ananiadou, Qianqian Xie:
Graph Contrastive Topic Model. Expert Syst. Appl. 255: 124631 (2024) - [j121]Yogesh K. Dwivedi, Laurie Hughes, Harshad K. D. H. Bhadeshia, Sophia Ananiadou, Anthony G. Cohn, Jacqueline M. Cole, Gareth John Conduit, Maunendra Sankar Desarkar, Xinwei Wang:
Artificial intelligence (AI) futures: India-UK collaborations emerging from the 4th Royal Society Yusuf Hamied workshop. Int. J. Inf. Manag. 76: 102725 (2024) - [j120]Zhiwei Liu, Tianlin Zhang, Kailai Yang, Paul Thompson, Zeping Yu, Sophia Ananiadou:
Emotion detection for misinformation: A review. Inf. Fusion 107: 102300 (2024) - [j119]Chenhan Yuan, Qianqian Xie, Sophia Ananiadou:
Temporal relation extraction with contrastive prototypical sampling. Knowl. Based Syst. 286: 111410 (2024) - [j118]Kailai Yang, Tianlin Zhang, Sophia Ananiadou:
Disentangled Variational Autoencoder for Emotion Recognition in Conversations. IEEE Trans. Affect. Comput. 15(2): 508-518 (2024) - [j117]Qianqian Xie, Prayag Tiwari, Sophia Ananiadou:
Knowledge-Enhanced Graph Topic Transformer for Explainable Biomedical Text Summarization. IEEE J. Biomed. Health Informatics 28(4): 1836-1847 (2024) - [c182]Jennifer Bishop, Sophia Ananiadou, Qianqian Xie:
LongDocFACTScore: Evaluating the Factuality of Long Document Abstractive Summarisation. LREC/COLING 2024: 10777-10789 - [c181]Zhiwei Liu, Boyang Liu, Paul Thompson, Kailai Yang, Sophia Ananiadou:
ConspEmoLLM: Conspiracy Theory Detection Using an Emotion-Based Large Language Model. ECAI 2024: 4649-4656 - [c180]Zhiwei Liu, Kailai Yang, Qianqian Xie, Tianlin Zhang, Sophia Ananiadou:
EmoLLMs: A Series of Emotional Large Language Models and Annotation Tools for Comprehensive Affective Analysis. KDD 2024: 5487-5496 - [c179]Xiao Zhang, Ruoyu Xiang, Chenhan Yuan, Duanyu Feng, Weiguang Han, Alejandro Lopez-Lira, Xiao-Yang Liu, Meikang Qiu, Sophia Ananiadou, Min Peng, Jimin Huang, Qianqian Xie:
Dólares or Dollars? Unraveling the Bilingual Prowess of Financial LLMs Between Spanish and English. KDD 2024: 6236-6246 - [c178]Tianlin Zhang, Kailai Yang, Shaoxiong Ji, Boyang Liu, Qianqian Xie, Sophia Ananiadou:
SuicidEmoji: Derived Emoji Dataset and Tasks for Suicide-Related Social Content. SIGIR 2024: 1136-1141 - [c177]Chenhan Yuan, Qianqian Xie, Jimin Huang, Sophia Ananiadou:
Back to the Future: Towards Explainable Temporal Reasoning with Large Language Models. WWW 2024: 1963-1974 - [c176]Kailai Yang, Tianlin Zhang, Ziyan Kuang, Qianqian Xie, Jimin Huang, Sophia Ananiadou:
MentaLLaMA: Interpretable Mental Health Analysis on Social Media with Large Language Models. WWW 2024: 4489-4500 - [e20]Dina Demner-Fushman, Sophia Ananiadou, Makoto Miwa, Kirk Roberts, Junichi Tsujii:
Proceedings of the 23rd Workshop on Biomedical Natural Language Processing, BioNLP@ACL 2024, Bangkok, Thailand, August 16, 2024. Association for Computational Linguistics 2024, ISBN 979-8-89176-130-8 [contents] - [i52]Yining Hua, Fenglin Liu, Kailai Yang, Zehan Li, Yi-han Sheu, Peilin Zhou, Lauren V. Moran, Sophia Ananiadou, Andrew Beam:
Large Language Models in Mental Health Care: a Scoping Review. CoRR abs/2401.02984 (2024) - [i51]Zhiwei Liu, Kailai Yang, Tianlin Zhang, Qianqian Xie, Zeping Yu, Sophia Ananiadou:
EmoLLMs: A Series of Emotional Large Language Models and Annotation Tools for Comprehensive Affective Analysis. CoRR abs/2401.08508 (2024) - [i50]Zeping Yu, Sophia Ananiadou:
How do Large Language Models Learn In-Context? Query and Key Matrices of In-Context Heads are Two Towers for Metric Learning. CoRR abs/2402.02872 (2024) - [i49]Xiao Zhang, Ruoyu Xiang, Chenhan Yuan, Duanyu Feng, Weiguang Han, Alejandro Lopez-Lira, Xiao-Yang Liu, Sophia Ananiadou, Min Peng, Jimin Huang, Qianqian Xie:
Dólares or Dollars? Unraveling the Bilingual Prowess of Financial LLMs Between Spanish and English. CoRR abs/2402.07405 (2024) - [i48]Qianqian Xie, Weiguang Han, Zhengyu Chen, Ruoyu Xiang, Xiao Zhang, Yueru He, Mengxi Xiao, Dong Li, Yongfu Dai, Duanyu Feng, Yijing Xu, Haoqiang Kang, Ziyan Kuang, Chenhan Yuan, Kailai Yang, Zheheng Luo, Tianlin Zhang, Zhiwei Liu, Guojun Xiong, Zhiyang Deng, Yuechen Jiang, Zhiyuan Yao, Haohang Li, Yangyang Yu, Gang Hu, Jiajia Huang, Xiao-Yang Liu, Alejandro Lopez-Lira, Benyou Wang, Yanzhao Lai, Hao Wang, Min Peng, Sophia Ananiadou, Jimin Huang:
The FinBen: An Holistic Financial Benchmark for Large Language Models. CoRR abs/2402.12659 (2024) - [i47]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
The Lay Person's Guide to Biomedicine: Orchestrating Large Language Models. CoRR abs/2402.13498 (2024) - [i46]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
Factual Consistency Evaluation of Summarisation in the Era of Large Language Models. CoRR abs/2402.13758 (2024) - [i45]Gang Hu, Ke Qin, Chenhan Yuan, Min Peng, Alejandro Lopez-Lira, Benyou Wang, Sophia Ananiadou, Wanlong Yu, Jimin Huang, Qianqian Xie:
No Language is an Island: Unifying Chinese and English in Financial Large Language Models, Instruction Data, and Benchmarks. CoRR abs/2403.06249 (2024) - [i44]Zhiwei Liu, Boyang Liu, Paul Thompson, Kailai Yang, Raghav Jain, Sophia Ananiadou:
ConspEmoLLM: Conspiracy Theory Detection Using an Emotion-Based Large Language Model. CoRR abs/2403.06765 (2024) - [i43]Kailai Yang, Zhiwei Liu, Qianqian Xie, Tianlin Zhang, Nirui Song, Jimin Huang, Ziyan Kuang, Sophia Ananiadou:
MetaAligner: Conditional Weak-to-Strong Correction for Generalizable Multi-Objective Alignment of Language Models. CoRR abs/2403.17141 (2024) - [i42]Zhiwei Liu, Kailai Yang, Qianqian Xie, Christine de Kock, Sophia Ananiadou, Eduard Hovy:
RAEmoLLM: Retrieval Augmented LLMs for Cross-Domain Misinformation Detection Using In-Context Learning based on Emotional Information. CoRR abs/2406.11093 (2024) - [i41]Zheheng Luo, Chenhan Yuan, Qianqian Xie, Sophia Ananiadou:
Are Large Language Models True Healthcare Jacks-of-All-Trades? Benchmarking Across Health Professions Beyond Physician Exams. CoRR abs/2406.11328 (2024) - [i40]Yuxin Wang, Duanyu Feng, Yongfu Dai, Zhengyu Chen, Jimin Huang, Sophia Ananiadou, Qianqian Xie, Hao Wang:
HARMONIC: Harnessing LLMs for Tabular Data Synthesis and Privacy Protection. CoRR abs/2408.02927 (2024) - [i39]Qianqian Xie, Dong Li, Mengxi Xiao, Zihao Jiang, Ruoyu Xiang, Xiao Zhang, Zhengyu Chen, Yueru He, Weiguang Han, Yuzhe Yang, Shunian Chen, Yifei Zhang, Lihang Shen, Daniel Kim, Zhiwei Liu, Zheheng Luo, Yangyang Yu, Yupeng Cao, Zhiyang Deng, Zhiyuan Yao, Haohang Li, Duanyu Feng, Yongfu Dai, VijayaSai Somasundaram, Peng Lu, Yilun Zhao, Yitao Long, Guojun Xiong, Kaleb Smith, Honghai Yu, Yanzhao Lai, Min Peng, Jianyun Nie, Jordan W. Suchow, Xiao-Yang Liu, Benyou Wang, Alejandro Lopez-Lira, Jimin Huang, Sophia Ananiadou:
Open-FinLLMs: Open Multimodal Large Language Models for Financial Applications. CoRR abs/2408.11878 (2024) - [i38]Kailai Yang, Zhiwei Liu, Qianqian Xie, Jimin Huang, Erxue Min, Sophia Ananiadou:
Selective Preference Optimization via Token-Level Reward Function Estimation. CoRR abs/2408.13518 (2024) - [i37]Zeping Yu, Sophia Ananiadou:
Interpreting Arithmetic Mechanism in Large Language Models through Comparative Neuron Analysis. CoRR abs/2409.14144 (2024) - [i36]Zhiwei Liu, Xin Zhang, Kailai Yang, Qianqian Xie, Jimin Huang, Sophia Ananiadou:
FMDLlama: Financial Misinformation Detection based on Large Language Models. CoRR abs/2409.16452 (2024) - 2023
- [j116]Tianlin Zhang, Kailai Yang, Shaoxiong Ji, Sophia Ananiadou:
Emotion fusion for mental illness detection from social media: A survey. Inf. Fusion 92: 231-246 (2023) - [j115]Tianlin Zhang, Kailai Yang, Hassan Alhuzali, Boyang Liu, Sophia Ananiadou:
PHQ-aware depressive symptoms identification with similarity contrastive learning on social media. Inf. Process. Manag. 60(5): 103417 (2023) - [j114]Boyang Liu, Viktor Schlegel, Paul Thompson, Riza Theresa Batista-Navarro, Sophia Ananiadou:
Global information-aware argument mining based on a top-down multi-turn QA model. Inf. Process. Manag. 60(5): 103445 (2023) - [j113]Jake Vasilakes, Panagiotis Georgiadis, Nhung T. H. Nguyen, Makoto Miwa, Sophia Ananiadou:
Contextualized medication event extraction with levitated markers. J. Biomed. Informatics 141: 104347 (2023) - [j112]Hassan Alhuzali, Sophia Ananiadou:
Improving Textual Emotion Recognition Based on Intra- and Inter-Class Variations. IEEE Trans. Affect. Comput. 14(2): 1297-1307 (2023) - [j111]Annika Marie Schoene, Lana Bojanic, Minh-Quoc Nghiem, Isabelle M. Hunt, Sophia Ananiadou:
Classifying Suicide-Related Content and Emotions on Twitter Using Graph Convolutional Neural Networks. IEEE Trans. Affect. Comput. 14(3): 1791-1802 (2023) - [j110]Kailai Yang, Tianlin Zhang, Hassan Alhuzali, Sophia Ananiadou:
Cluster-Level Contrastive Learning for Emotion Recognition in Conversations. IEEE Trans. Affect. Comput. 14(4): 3269-3280 (2023) - [j109]Jiarun Cao, Elke M. van Veen, Niels Peek, Andrew G. Renehan, Sophia Ananiadou:
A Novel Automated Approach to Mutation-Cancer Relation Extraction by Incorporating Heterogeneous Knowledge. IEEE J. Biomed. Health Informatics 27(2): 1096-1105 (2023) - [c175]Jiarun Cao, Niels Peek, Andrew G. Renehan, Sophia Ananiadou:
Gaussian Distributed Prototypical Network for Few-shot Genomic Variant Detection. BioNLP@ACL 2023: 26-36 - [c174]Chenhan Yuan, Qianqian Xie, Sophia Ananiadou:
Zero-shot Temporal Relation Extraction with ChatGPT. BioNLP@ACL 2023: 92-102 - [c173]Tianlin Zhang, Kailai Yang, Sophia Ananiadou:
Sentiment-guided Transformer with Severity-aware Contrastive Learning for Depression Detection on Social Media. BioNLP@ACL 2023: 114-126 - [c172]Ken Yano, Makoto Miwa, Sophia Ananiadou:
DISTANT: Distantly Supervised Entity Span Detection and Classification. BioNLP@ACL 2023: 171-177 - [c171]Tomas Goldsack, Zheheng Luo, Qianqian Xie, Carolina Scarton, Matthew Shardlow, Sophia Ananiadou, Chenghua Lin:
BioLaySumm 2023 Shared Task: Lay Summarisation of Biomedical Research Articles. BioNLP@ACL 2023: 468-477 - [c170]Kailai Yang, Tianlin Zhang, Shaoxiong Ji, Sophia Ananiadou:
A Bipartite Graph is All We Need for Enhancing Emotional Reasoning with Commonsense Knowledge. CIKM 2023: 2917-2927 - [c169]Nhung Nguyen, Makoto Miwa, Sophia Ananiadou:
Span-based Named Entity Recognition by Generating and Compressing Information. EACL 2023: 1976-1988 - [c168]Kailai Yang, Shaoxiong Ji, Tianlin Zhang, Qianqian Xie, Ziyan Kuang, Sophia Ananiadou:
Towards Interpretable Mental Health Analysis with Large Language Models. EMNLP 2023: 6056-6077 - [c167]Boyang Liu, Viktor Schlegel, Riza Batista-Navarro, Sophia Ananiadou:
Argument mining as a multi-hop generative machine reading comprehension task. EMNLP (Findings) 2023: 10846-10858 - [c166]Erxue Min, Sophia Ananiadou:
PESTO: A Post-User Fusion Network for Rumour Detection on Social Media. WASSA@ACL 2023: 1-10 - [c165]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
CitationSum: Citation-aware Graph Contrastive Learning for Scientific Paper Summarization. WWW 2023: 1843-1852 - [e19]Dina Demner-Fushman, Sophia Ananiadou, Kevin Cohen:
The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks, BioNLP@ACL 2023, Toronto, Canada, 13 July 2023. Association for Computational Linguistics 2023 [contents] - [i35]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
CitationSum: Citation-aware Graph Contrastive Learning for Scientific Paper Summarization. CoRR abs/2301.11223 (2023) - [i34]Kailai Yang, Tianlin Zhang, Hassan Alhuzali, Sophia Ananiadou:
Cluster-Level Contrastive Learning for Emotion Recognition in Conversations. CoRR abs/2302.03508 (2023) - [i33]Nhung T. H. Nguyen, Makoto Miwa, Sophia Ananiadou:
Span-based Named Entity Recognition by Generating and Compressing Information. CoRR abs/2302.05392 (2023) - [i32]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
ChatGPT as a Factual Inconsistency Evaluator for Abstractive Text Summarization. CoRR abs/2303.15621 (2023) - [i31]Kailai Yang, Shaoxiong Ji, Tianlin Zhang, Qianqian Xie, Sophia Ananiadou:
On the Evaluations of ChatGPT and Emotion-enhanced Prompting for Mental Health Analysis. CoRR abs/2304.03347 (2023) - [i30]Chenhan Yuan, Qianqian Xie, Sophia Ananiadou:
Zero-shot Temporal Relation Extraction with ChatGPT. CoRR abs/2304.05454 (2023) - [i29]Qianqian Xie, Zheheng Luo, Benyou Wang, Sophia Ananiadou:
A Survey on Biomedical Text Summarization with Pre-trained Language Model. CoRR abs/2304.08763 (2023) - [i28]Tianlin Zhang, Kailai Yang, Shaoxiong Ji, Sophia Ananiadou:
Emotion fusion for mental illness detection from social media: A survey. CoRR abs/2304.09493 (2023) - [i27]Shaoxiong Ji, Tianlin Zhang, Kailai Yang, Sophia Ananiadou, Erik Cambria, Jörg Tiedemann:
Domain-specific Continued Pretraining of Language Models for Capturing Long Context in Mental Health. CoRR abs/2304.10447 (2023) - [i26]Kailai Yang, Tianlin Zhang, Sophia Ananiadou:
Disentangled Variational Autoencoder for Emotion Recognition in Conversations. CoRR abs/2305.14071 (2023) - [i25]Zheheng Luo, Lei Liu, Qianqian Xie, Sophia Ananiadou:
Graph Contrastive Topic Model. CoRR abs/2307.02078 (2023) - [i24]Kailai Yang, Tianlin Zhang, Shaoxiong Ji, Sophia Ananiadou:
A Bipartite Graph is All We Need for Enhancing Emotional Reasoning with Commonsense Knowledge. CoRR abs/2308.04811 (2023) - [i23]Jennifer Bishop, Qianqian Xie, Sophia Ananiadou:
LongDocFACTScore: Evaluating the Factuality of Long Document Abstractive Summarisation. CoRR abs/2309.12455 (2023) - [i22]Kailai Yang, Tianlin Zhang, Ziyan Kuang, Qianqian Xie, Sophia Ananiadou:
MentalLLaMA: Interpretable Mental Health Analysis on Social Media with Large Language Models. CoRR abs/2309.13567 (2023) - [i21]Tomas Goldsack, Zheheng Luo, Qianqian Xie, Carolina Scarton, Matthew Shardlow, Sophia Ananiadou, Chenghua Lin:
Overview of the BioLaySumm 2023 Shared Task on Lay Summarization of Biomedical Research Articles. CoRR abs/2309.17332 (2023) - [i20]Chenhan Yuan, Qianqian Xie, Jimin Huang, Sophia Ananiadou:
Back to the Future: Towards Explainable Temporal Reasoning with Large Language Models. CoRR abs/2310.01074 (2023) - [i19]Zhiwei Liu, Tianlin Zhang, Kailai Yang, Paul Thompson, Zeping Yu, Sophia Ananiadou:
Emotion Detection for Misinformation: A Review. CoRR abs/2311.00671 (2023) - [i18]Shaoxiong Ji, Tianlin Zhang, Kailai Yang, Sophia Ananiadou, Erik Cambria:
Rethinking Large Language Models in Mental Health Applications. CoRR abs/2311.11267 (2023) - [i17]Zeping Yu, Kailai Yang, Zhiwei Liu, Sophia Ananiadou:
Exploring the Residual Stream of Transformers. CoRR abs/2312.12141 (2023) - 2022
- [j108]Hai-Long Trieu, Makoto Miwa, Sophia Ananiadou:
BioVAE: a pre-trained latent variable language model for biomedical text mining. Bioinform. 38(3): 872-874 (2022) - [j107]Kurt J. P. Espinosa, Panagiotis Georgiadis, Fenia Christopoulou, Meizhi Ju, Makoto Miwa, Sophia Ananiadou:
Comparing neural models for nested and overlapping biomedical event detection. BMC Bioinform. 23(1): 211 (2022) - [j106]Odbal, Guanhong Zhang, Sophia Ananiadou:
Examining and mitigating gender bias in text emotion detection task. Neurocomputing 493: 422-434 (2022) - [j105]Maolin Li, Sophia Ananiadou:
Neural architectures for aggregating sequence labels from multiple annotators. Neurocomputing 514: 539-550 (2022) - [j104]Kailai Yang, Tianlin Zhang, Sophia Ananiadou:
A mental state Knowledge-aware and Contrastive Network for early stress and depression detection on social media. Inf. Process. Manag. 59(4): 102961 (2022) - [j103]Qianqian Xie, Jennifer Bishop, Prayag Tiwari, Sophia Ananiadou:
Pre-trained language models with domain knowledge for biomedical extractive summarization. Knowl. Based Syst. 252: 109460 (2022) - [j102]Tianlin Zhang, Annika Marie Schoene, Shaoxiong Ji, Sophia Ananiadou:
Natural language processing applied to mental illness detection: a narrative review. npj Digit. Medicine 5 (2022) - [c164]Jake Vasilakes, Chrysoula Zerva, Makoto Miwa, Sophia Ananiadou:
Learning Disentangled Representations of Negation and Uncertainty. ACL (1) 2022: 8380-8397 - [c163]Hai-Long Trieu, Makoto Miwa, Sophia Ananiadou:
Named Entity Recognition for Cancer Immunology Research Using Distant Supervision. BioNLP@ACL 2022: 171-177 - [c162]Jennifer Bishop, Qianqian Xie, Sophia Ananiadou:
GenCompareSum: a hybrid unsupervised summarization method using salience. BioNLP@ACL 2022: 220-240 - [c161]Qianqian Xie, Jimin Huang, Tulika Saha, Sophia Ananiadou:
GRETEL: Graph Contrastive Topic Enhanced Language Model for Long Document Extractive Summarization. COLING 2022: 6259-6269 - [c160]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
Readability Controllable Biomedical Document Summarization. EMNLP (Findings) 2022: 4667-4680 - [c159]Tulika Saha, Sophia Ananiadou:
Emotion-aware and Intent-controlled Empathetic Response Generation using Hierarchical Transformer Network. IJCNN 2022: 1-8 - [c158]Emrah Inan, Paul Thompson, Fenia Christopoulou, Tim Yates, Sophia Ananiadou:
Knowledge Graph Enrichment of a Semantic Search System for Construction Safety. IntelliSys (3) 2022: 33-52 - [c157]Minh-Quoc Nghiem, Paul Baylis, André Freitas, Sophia Ananiadou:
Text Classification and Prediction in the Legal Domain. LREC 2022: 4717-4722 - [c156]Boyang Liu, Viktor Schlegel, Riza Batista-Navarro, Sophia Ananiadou:
Incorporating Zoning Information into Argument Mining from Biomedical Literature. LREC 2022: 6162-6169 - [c155]Annika Marie Schoene, Nina Dethlefs, Sophia Ananiadou:
RELATE: Generating a linguistically inspired Knowledge Graph for fine-grained emotion classification. LREC 2022: 6317-6327 - [c154]Erxue Min, Yu Rong, Tingyang Xu, Yatao Bian, Da Luo, Kangyi Lin, Junzhou Huang, Sophia Ananiadou, Peilin Zhao:
Neighbour Interaction based Click-Through Rate Prediction via Graph-masked Transformer. SIGIR 2022: 353-362 - [c153]Erxue Min, Yu Rong, Yatao Bian, Tingyang Xu, Peilin Zhao, Junzhou Huang, Sophia Ananiadou:
Divide-and-Conquer: Post-User Interaction Network for Fake News Detection on Social Media. WWW 2022: 1148-1158 - [e18]Dina Demner-Fushman, Kevin Bretonnel Cohen, Sophia Ananiadou, Junichi Tsujii:
Proceedings of the 21st Workshop on Biomedical Language Processing, BioNLP@ACL 2022, Dublin, Ireland, May 26, 2022. Association for Computational Linguistics 2022, ISBN 978-1-955917-27-8 [contents] - [i16]Erxue Min, Yu Rong, Tingyang Xu, Yatao Bian, Peilin Zhao, Junzhou Huang, Da Luo, Kangyi Lin, Sophia Ananiadou:
Masked Transformer for Neighhourhood-aware Click-Through Rate Prediction. CoRR abs/2201.13311 (2022) - [i15]Erxue Min, Runfa Chen, Yatao Bian, Tingyang Xu, Kangfei Zhao, Wenbing Huang, Peilin Zhao, Junzhou Huang, Sophia Ananiadou, Yu Rong:
Transformer for Graphs: An Overview from Architecture Perspective. CoRR abs/2202.08455 (2022) - [i14]Jake Vasilakes, Chrysoula Zerva, Makoto Miwa, Sophia Ananiadou:
Learning Disentangled Representations of Negation and Uncertainty. CoRR abs/2204.00511 (2022) - [i13]Qianqian Xie, Jimin Huang, Tulika Saha, Sophia Ananiadou:
GRETEL: Graph Contrastive Topic Enhanced Language Model for Long Document Extractive Summarization. CoRR abs/2208.09982 (2022) - [i12]Zheheng Luo, Qianqian Xie, Sophia Ananiadou:
Readability Controllable Biomedical Document Summarization. CoRR abs/2210.04705 (2022) - 2021
- [c152]Laura Vásquez-Rodríguez, Matthew Shardlow, Piotr Przybyla, Sophia Ananiadou:
Investigating Text Simplification Evaluation. ACL/IJCNLP (Findings) 2021: 876-882 - [c151]Thy Thy Tran, Phong Le, Sophia Ananiadou:
One-shot to Weakly-Supervised Relation Classification using Language Models. AKBC 2021 - [c150]Jiarun Cao, Elke M. van Veen, Niels Peek, Andrew G. Renehan, Sophia Ananiadou:
EPICURE: Ensemble Pretrained Models for Extracting Cancer Mutations from Literature. CBMS 2021: 461-467 - [c149]Hassan Alhuzali, Tianlin Zhang, Sophia Ananiadou:
Predicting Sign of Depression via Using Frozen Pre-trained Models and Random Forest Classifier. CLEF (Working Notes) 2021: 888-896 - [c148]Minh-Quoc Nghiem, Paul Baylis, Sophia Ananiadou:
Paladin: an annotation tool based on active and proactive learning. EACL (System Demonstrations) 2021: 238-243 - [c147]Hassan Alhuzali, Sophia Ananiadou:
SpanEmo: Casting Multi-label Emotion Classification as Span-prediction. EACL 2021: 1573-1584 - [c146]Emrah Inan, Paul Thompson, Tim Yates, Sophia Ananiadou:
HSEarch: Semantic Search System for Workplace Accident Reports. ECIR (2) 2021: 514-519 - [c145]Jiarun Cao, Sophia Ananiadou:
GenerativeRE: Incorporating a Novel Copy Mechanism and Pretrained Model for Joint Entity and Relation Extraction. EMNLP (Findings) 2021: 2119-2126 - [c144]Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
Distantly Supervised Relation Extraction with Sentence Reconstruction and Knowledge Base Priors. NAACL-HLT 2021: 11-26 - [c143]Laura Vásquez-Rodríguez, Matthew Shardlow, Piotr Przybyla, Sophia Ananiadou:
The Role of Text Simplification Operations in Evaluation. CTTS@SEPLN 2021 - [e17]Dina Demner-Fushman, Kevin Bretonnel Cohen, Sophia Ananiadou, Junichi Tsujii:
Proceedings of the 20th Workshop on Biomedical Language Processing, BioNLP@NAACL-HLT 2021, Online, June 11, 2021. Association for Computational Linguistics 2021, ISBN 978-1-954085-40-4 [contents] - [i11]Hassan Alhuzali, Sophia Ananiadou:
SpanEmo: Casting Multi-label Emotion Classification as Span-prediction. CoRR abs/2101.10038 (2021) - [i10]Emrah Inan, Paul Thompson, Tim Yates, Sophia Ananiadou:
HSEarch: semantic search system for workplace accident reports. CoRR abs/2103.12420 (2021) - [i9]Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
Distantly Supervised Relation Extraction with Sentence Reconstruction and Knowledge Base Priors. CoRR abs/2104.08225 (2021) - [i8]Jiarun Cao, Elke M. van Veen, Niels Peek, Andrew G. Renehan, Sophia Ananiadou:
EPICURE Ensemble Pretrained Models for Extracting Cancer Mutations from Literature. CoRR abs/2106.07722 (2021) - [i7]Laura Vásquez-Rodríguez, Matthew Shardlow, Piotr Przybyla, Sophia Ananiadou:
Investigating Text Simplification Evaluation. CoRR abs/2107.13662 (2021) - 2020
- [j101]Hai-Long Trieu, Thy Thy Tran, Anh-Khoa Duong Nguyen, Anh Nguyen, Makoto Miwa, Sophia Ananiadou:
DeepEventMine: end-to-end neural nested event extraction from biomedical texts. Bioinform. 36(19): 4910-4917 (2020) - [j100]Thy Thy Tran, Makoto Miwa, Sophia Ananiadou:
Syntactically-informed word representations from graph neural network. Neurocomputing 413: 431-443 (2020) - [j99]Meizhi Ju, Nhung T. H. Nguyen, Makoto Miwa, Sophia Ananiadou:
An ensemble of neural models for nested adverse drug events and medication extraction with subwords. J. Am. Medical Informatics Assoc. 27(1): 22-30 (2020) - [j98]Fenia Christopoulou, Thy Thy Tran, Sunil Kumar Sahu, Makoto Miwa, Sophia Ananiadou:
Adverse drug events and medication relation extraction in electronic health records with ensemble deep learning methods. J. Am. Medical Informatics Assoc. 27(1): 39-46 (2020) - [j97]Chrysoula Zerva, Minh-Quoc Nghiem, Nhung T. H. Nguyen, Sophia Ananiadou:
Cited text span identification for scientific summarisation using pre-trained encoders. Scientometrics 125(3): 3109-3137 (2020) - [c142]Thy Thy Tran, Phong Le, Sophia Ananiadou:
Revisiting Unsupervised Relation Extraction. ACL 2020: 7498-7505 - [c141]Maolin Li, Hiroya Takamura, Sophia Ananiadou:
A Neural Model for Aggregating Coreference Annotation in Crowdsourcing. COLING 2020: 5760-5773 - [c140]Paul Thompson, Tim Yates, Emrah Inan, Sophia Ananiadou:
Semantic Annotation for Improved Safety in Construction Work. LREC 2020: 1990-1999 - [e16]Dina Demner-Fushman, Kevin Bretonnel Cohen, Sophia Ananiadou, Junichi Tsujii:
Proceedings of the 19th SIGBioMed Workshop on Biomedical Language Processing, BioNLP 2020, Online, July 9, 2020. Association for Computational Linguistics 2020, ISBN 978-1-952148-09-5 [contents] - [i6]Thy Thy Tran, Phong Le, Sophia Ananiadou:
Revisiting Unsupervised Relation Extraction. CoRR abs/2005.00087 (2020)
2010 – 2019
- 2019
- [j96]Axel J. Soto, Piotr Przybyla, Sophia Ananiadou:
Thalia: semantic search engine for biomedical abstracts. Bioinform. 35(10): 1799-1801 (2019) - [j95]Yipei Wang, Xingyu Fan, Luoxin Chen, Eric I-Chao Chang, Sophia Ananiadou, Junichi Tsujii, Yan Xu:
Mapping anatomical related entities to human body parts based on wikipedia in discharge summaries. BMC Bioinform. 20(1): 430:1-430:11 (2019) - [j94]Piotr Przybyla, Austin J. Brockmeier, Sophia Ananiadou:
Quantifying risk factors in medical reports with a context-aware linear model. J. Am. Medical Informatics Assoc. 26(6): 537-546 (2019) - [j93]Austin J. Brockmeier, Meizhi Ju, Piotr Przybyla, Sophia Ananiadou:
Improving reference prioritisation with PICO recognition. BMC Medical Informatics Decis. Mak. 19(1): 256 (2019) - [j92]Yifei Wang, Sophia Ananiadou, Jun'ichi Tsujii:
Improving clinical named entity recognition in Chinese using the graphical and phonetic feature. BMC Medical Informatics Decis. Mak. 19-S(7): 273 (2019) - [j91]Matthew Shardlow, Meizhi Ju, Maolin Li, Christian O'Reilly, Elisabetta Iavarone, John McNaught, Sophia Ananiadou:
A Text Mining Pipeline Using Active and Deep Learning Aimed at Curating Information in Computational Neuroscience. Neuroinformatics 17(3): 391-406 (2019) - [c139]Sunil Kumar Sahu, Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
Inter-sentence Relation Extraction with Document-level Graph Convolutional Neural Network. ACL (1) 2019: 4309-4316 - [c138]Hai-Long Trieu, Anh-Khoa Duong Nguyen, Nhung T. H. Nguyen, Makoto Miwa, Hiroya Takamura, Sophia Ananiadou:
Coreference Resolution in Full Text Articles with BERT and Syntax-based Mention Filtering. BioNLP-OST@EMNLP-IJNCLP 2019: 196-205 - [c137]Hassan Alhuzali, Sophia Ananiadou:
Improving classification of Adverse Drug Reactions through Using Sentiment Analysis and Transfer Learning. BioNLP@ACL 2019: 339-347 - [c136]Kurt Junshean Espinosa, Makoto Miwa, Sophia Ananiadou:
A Search-based Neural Model for Biomedical Nested and Overlapping Event Detection. EMNLP/IJCNLP (1) 2019: 3677-3684 - [c135]Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
Connecting the Dots: Document-level Neural Relation Extraction with Edge-oriented Graphs. EMNLP/IJCNLP (1) 2019: 4924-4935 - [c134]Maolin Li, Arvid Fahlström Myrman, Tingting Mu, Sophia Ananiadou:
Modelling Instance-Level Annotator Reliability for Natural Language Labelling Tasks. NAACL-HLT (1) 2019: 2873-2883 - [c133]Chrysoula Zerva, Minh-Quoc Nghiem, Nhung T. H. Nguyen, Sophia Ananiadou:
NaCTeM-UoM @ CL-SciSumm 2019. BIRNDL@SIGIR 2019: 167-180 - [e15]Dina Demner-Fushman, Kevin Bretonnel Cohen, Sophia Ananiadou, Junichi Tsujii:
Proceedings of the 18th BioNLP Workshop and Shared Task, BioNLP@ACL 2019, Florence, Italy, August 1, 2019. Association for Computational Linguistics 2019, ISBN 978-1-950737-28-4 [contents] - [i5]Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
A Walk-based Model on Entity Graphs for Relation Extraction. CoRR abs/1902.07023 (2019) - [i4]Maolin Li, Arvid Fahlström Myrman, Tingting Mu, Sophia Ananiadou:
Modelling Instance-Level Annotator Reliability for Natural Language Labelling Tasks. CoRR abs/1905.04981 (2019) - [i3]Sunil Kumar Sahu, Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
Inter-sentence Relation Extraction with Document-level Graph Convolutional Neural Network. CoRR abs/1906.04684 (2019) - [i2]Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
Connecting the Dots: Document-level Neural Relation Extraction with Edge-oriented Graphs. CoRR abs/1909.00228 (2019) - [i1]Kurt Junshean Espinosa, Makoto Miwa, Sophia Ananiadou:
A Search-based Neural Model for Biomedical Nested and Overlapping Event Detection. CoRR abs/1910.10281 (2019) - 2018
- [j90]Axel J. Soto, Chrysoula Zerva, Riza Batista-Navarro, Sophia Ananiadou:
LitPathExplorer: a confidence-based visual text analytics tool for exploring literature-enriched pathway models. Bioinform. 34(8): 1389-1397 (2018) - [j89]Paul Thompson, Sophia Daikou, Kenju Ueno, Riza Batista-Navarro, Jun'ichi Tsujii, Sophia Ananiadou:
Annotation and detection of drug effects in text for pharmacovigilance. J. Cheminformatics 10(1): 37:1-37:33 (2018) - [j88]Matthew Shardlow, Riza Batista-Navarro, Paul Thompson, Raheel Nawaz, John McNaught, Sophia Ananiadou:
Identification of research hypotheses and new knowledge from scientific literature. BMC Medical Informatics Decis. Mak. 18(1): 46:1-46:13 (2018) - [j87]Tingting Mu, John Yannis Goulermas, Sophia Ananiadou:
Data Visualization with Structural Control of Global Cohort and Local Data Neighborhoods. IEEE Trans. Pattern Anal. Mach. Intell. 40(6): 1323-1337 (2018) - [j86]Austin J. Brockmeier, Tingting Mu, Sophia Ananiadou, John Yannis Goulermas:
Self-Tuned Descriptive Document Clustering Using a Predictive Network. IEEE Trans. Knowl. Data Eng. 30(10): 1929-1942 (2018) - [c132]Fenia Christopoulou, Makoto Miwa, Sophia Ananiadou:
A Walk-based Model on Entity Graphs for Relation Extraction. ACL (2) 2018: 81-88 - [c131]Yifei Wang, Sophia Ananiadou, Jun'ichi Tsujii:
Improve Chinese Clinical Named Entity Recognition Performance by Using the Graphical and Phonetic Feature. BIBM 2018: 1582-1586 - [c130]Hai-Long Trieu, Nhung T. H. Nguyen, Makoto Miwa, Sophia Ananiadou:
Investigating Domain-Specific Information for Neural Coreference Resolution on Biomedical Texts. BioNLP 2018: 183-188 - [c129]Minh-Quoc Nghiem, Sophia Ananiadou:
APLenty: annotation tool for creating high-quality datasets using active and proactive learning. EMNLP (Demonstration) 2018: 108-113 - [c128]Matthew Shardlow, Nhung T. H. Nguyen, Gareth I. Owen, Claire O'Donovan, Andrew Leach, John McNaught, Steve Turner, Sophia Ananiadou:
A New Corpus to Support Text Mining for the Curation of Metabolites in the ChEBI Database. LREC 2018 - [c127]Meizhi Ju, Makoto Miwa, Sophia Ananiadou:
A Neural Layered Model for Nested Named Entity Recognition. NAACL-HLT 2018: 1446-1459 - [e14]Dina Demner-Fushman, Kevin Bretonnel Cohen, Sophia Ananiadou, Junichi Tsujii:
Proceedings of the BioNLP 2018 workshop, Melbourne, Australia, July 19, 2018. Association for Computational Linguistics 2018, ISBN 978-1-948087-33-9 [contents] - 2017
- [j85]Chrysoula Zerva, Riza Batista-Navarro, Philip Day, Sophia Ananiadou:
Using uncertainty to link and rank evidence from biomedical literature for model curation. Bioinform. 33(23): 3784-3792 (2017) - [j84]Georgios Kontonatsios, Austin J. Brockmeier, Piotr Przybyla, John McNaught, Tingting Mu, John Yannis Goulermas, Sophia Ananiadou:
A semi-supervised approach using label propagation to support citation screening. J. Biomed. Informatics 72: 67-76 (2017) - [j83]Austin J. Brockmeier, Tingting Mu, Sophia Ananiadou, John Yannis Goulermas:
Quantifying the Informativeness of Similarity Measurements. J. Mach. Learn. Res. 18: 76:1-76:61 (2017) - [j82]Paul Thompson, Raheel Nawaz, John McNaught, Sophia Ananiadou:
Enriching news events with meta-knowledge information. Lang. Resour. Evaluation 51(2): 409-438 (2017) - [c126]Maolin Li, Nhung T. H. Nguyen, Sophia Ananiadou:
Proactive Learning for Named Entity Recognition. BioNLP 2017: 117-125 - [c125]Motoki Sato, Austin J. Brockmeier, Georgios Kontonatsios, Tingting Mu, John Yannis Goulermas, Jun'ichi Tsujii, Sophia Ananiadou:
Distributed Document and Phrase Co-embeddings for Descriptive Clustering. EACL (1) 2017: 991-1001 - [c124]Paul Thompson, Sophia Ananiadou:
Extracting Gene-Disease Relations from Text to Support Biomarker Discovery. DH 2017: 180-189 - [c123]Piotr Przybyla, Axel J. Soto, Sophia Ananiadou:
Identifying Personalised Treatments and Clinical Trials for Precision Medicine using Semantic Search with Thalia. TREC 2017 - [e13]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, Junichi Tsujii:
BioNLP 2017, Vancouver, Canada, August 4, 2017. Association for Computational Linguistics 2017, ISBN 978-1-945626-59-3 [contents] - 2016
- [j81]Riza Theresa Batista-Navarro, Jacob Carter, Sophia Ananiadou:
Argo: enabling the development of bespoke workflows and services for disease annotation. Database J. Biol. Databases Curation 2016 (2016) - [j80]Sun Kim, Rezarta Islamaj Dogan, Andrew Chatr-aryamontri, Christie S. Chang, Rose Oughtred, Jennifer M. Rust, Riza Batista-Navarro, Jacob Carter, Sophia Ananiadou, Sérgio Matos, André Santos, David Campos, José Luís Oliveira, Onkar Singh, Jitendra Jonnagaddala, Hong-Jie Dai, Emily Chia-Yu Su, Yung-Chun Chang, Yu-Chen Su, Chun-Han Chu, Chien Chin Chen, Wen-Lian Hsu, Yifan Peng, Cecilia N. Arighi, Cathy H. Wu, K. Vijay-Shanker, Ferhat Aydin, Zehra Melce Hüsünbeyi, Arzucan Özgür, Soo-Yong Shin, Dongseop Kwon, Kara Dolinski, Mike Tyers, W. John Wilbur, Donald C. Comeau:
BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID. Database J. Biol. Databases Curation 2016 (2016) - [j79]Piotr Przybyla, Matthew Shardlow, Sophie Aubin, Robert Bossy, Richard Eckart de Castilho, Stelios Piperidis, John McNaught, Sophia Ananiadou:
Text mining resources for the life sciences. Database J. Biol. Databases Curation 2016 (2016) - [j78]Qinghua Wang, Shabbir Syed-Abdul, Lara Almeida, Sophia Ananiadou, Yalbi I. Balderas-Martínez, Riza Batista-Navarro, David Campos, Lucy Chilton, Hui-Jou Chou, Gabriela Contreras, Laurel Cooper, Hong-Jie Dai, Barbra Ferrell, Juliane Fluck, Socorro Gama-Castro, Nancy George, Georgios V. Gkoutos, Afroza Khanam Irin, Lars Juhl Jensen, Silvia Jimenez, Toni Rose Jue, Ingrid M. Keseler, Sumit Madan, Sérgio Matos, Peter McQuilton, Marija Milacic, Matthew E. Mort, Jeyakumar Natarajan, Evangelos Pafilis, Emiliano Pereira, Shruti Rao, Fabio Rinaldi, Karen Rothfels, David Salgado, Raquel M. Silva, Onkar Singh, Raymund Stefancsik, Chu-Hsien Su, Suresh Subramani, Hamsa D. Tadepally, Loukia Tsaprouni, Nicole A. Vasilevsky, Xiaodong Wang, Andrew Chatr-aryamontri, Stanley J. F. Laulederkind, Sherri Matis-Mitchell, Johanna R. McEntyre, Sandra E. Orchard, Sangya Pundir, Raul Rodriguez-Esteban, Kimberly Van Auken, Zhiyong Lu, Mary L. Schaeffer, Cathy H. Wu, Lynette Hirschman, Cecilia N. Arighi:
Overview of the interactive task in BioCreative V. Database J. Biol. Databases Curation 2016 (2016) - [j77]Tingting Mu, John Yannis Goulermas, Ioannis Korkontzelos, Sophia Ananiadou:
Descriptive document clustering via discriminant learning in a co-embedded space of multilevel similarities. J. Assoc. Inf. Sci. Technol. 67(1): 106-133 (2016) - [j76]Kazuma Hashimoto, Georgios Kontonatsios, Makoto Miwa, Sophia Ananiadou:
Topic detection using paragraph vectors to support active learning in systematic reviews. J. Biomed. Informatics 62: 59-65 (2016) - [j75]Ioannis Korkontzelos, Azadeh Nikfarjam, Matthew Shardlow, Abeed Sarker, Sophia Ananiadou, Graciela Gonzalez-Hernandez:
Analysis of the effect of sentiment analysis on extracting adverse drug reactions from tweets and forum posts. J. Biomed. Informatics 62: 148-158 (2016) - [j74]Georg Rehm, Hans Uszkoreit, Sophia Ananiadou, Núria Bel, Audroné Bieleviciené, Lars Borin, António Branco, Gerhard Budin, Nicoletta Calzolari, Walter Daelemans, Radovan Garabík, Marko Grobelnik, Carmen García-Mateo, Josef van Genabith, Jan Hajic, Inma Hernáez, John Judge, Svetla Koeva, Simon Krek, Cvetana Krstev, Krister Lindén, Bernardo Magnini, Joseph Mariani, John McNaught, Maite Melero, Monica Monachini, Asunción Moreno, Jan Odijk, Maciej Ogrodniczuk, Piotr Pezik, Stelios Piperidis, Adam Przepiórkowski, Eiríkur Rögnvaldsson, Mike Rosner, Bolette Sandford Pedersen, Inguna Skadina, Koenraad De Smedt, Marko Tadic, Paul Thompson, Dan Tufis, Tamás Váradi, Andrejs Vasiljevs, Kadri Vider, Jolanta Zabarskaite:
The strategic impact of META-NET on the regional, national and international level. Lang. Resour. Evaluation 50(2): 351-374 (2016) - [c122]Kurt Junshean Espinosa, Riza Theresa Batista-Navarro, Sophia Ananiadou:
Learning to recognise named entities in tweets by exploiting weakly labelled data. NUT@COLING 2016: 153-163 - [c121]Riza Theresa Batista-Navarro, Jennifer Hammock, William Ulate, Sophia Ananiadou:
A Text Mining Framework for Accelerating the Semantic Curation of Literature. TPDL 2016: 459-462 - [c120]Ioannis Korkontzelos, Paul Thompson, Sophia Ananiadou:
Identifying Content Types of Messages Related to Open Source Software Projects. LREC 2016 - [c119]Ioannis Korkontzelos, Beverley Thomas, Makoto Miwa, Sophia Ananiadou:
Ensemble Classification of Grants using LDA-based Features. LREC 2016 - [c118]Sophia Ananiadou, Paul Thompson:
Supporting Biological Pathway Curation Through Text Mining. DAMDID/RCDL (Selected Papers) 2016: 59-73 - [c117]Sophia Ananiadou:
Text Mining Bridging the Gap between Knowledge and Text. DAMDID/RCDL 2016: 140-141 - [c116]Piotr Przybyla, Nhung T. H. Nguyen, Matthew Shardlow, Georgios Kontonatsios, Sophia Ananiadou:
NaCTeM at SemEval-2016 Task 1: Inferring sentence-level semantic similarity from an ensemble of complementary lexical and sentence-level features. SemEval@NAACL-HLT 2016: 614-620 - [c115]Riza Batista-Navarro, Chrysoula Zerva, Sophia Ananiadou:
Construction of a Biodiversity Knowledge Repository using a Text Mining-based Framework. SIMBig 2016: 22-25 - [c114]Riza Batista-Navarro, Chrysoula Zerva, Nhung T. H. Nguyen, Sophia Ananiadou:
A Text Mining-Based Framework for Constructing an RDF-Compliant Biodiversity Knowledge Repository. SIMBig (Revised Selected Papers) 2016: 30-42 - [e12]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, Jun'ichi Tsujii:
Proceedings of the 15th Workshop on Biomedical Natural Language Processing, BioNLP@ACL 2016, Berlin, Germany, August 12, 2016. Association for Computational Linguistics 2016, ISBN 978-1-945626-12-8 [contents] - [e11]Sophia Ananiadou, Riza Batista-Navarro, Kevin Bretonnel Cohen, Dina Demner-Fushman, Paul Thompson:
Proceedings of the Fifth Workshop on Building and Evaluating Resources for Biomedical Text Mining, BioTxtM@COLING 2016, Osaka, Japan, December 12, 2016. The COLING 2016 Organizing Committee 2016, ISBN 978-4-87974-719-8 [contents] - 2015
- [j73]Ioannis Korkontzelos, Dimitrios Piliouras, Andrew W. Dowsey, Sophia Ananiadou:
Boosting drug named entity recognition using an aggregate classifier. Artif. Intell. Medicine 65(2): 145-153 (2015) - [j72]Xiao Fu, Riza Theresa Batista-Navarro, Rafal Rak, Sophia Ananiadou:
Supporting the annotation of chronic obstructive pulmonary disease (COPD) phenotypes with text mining workflows. J. Biomed. Semant. 6: 8 (2015) - [j71]Yan Xu, Luoxin Chen, Junsheng Wei, Sophia Ananiadou, Yubo Fan, Yi Qian, Eric I-Chao Chang, Jun'ichi Tsujii:
Bilingual term alignment from comparable corpora in English discharge summary and Chinese discharge summary. BMC Bioinform. 16: 149:1-149:10 (2015) - [j70]Sampo Pyysalo, Tomoko Ohta, Rafal Rak, Andrew Rowley, Hong-Woo Chun, Sung-Jae Jung, Sung-Pil Choi, Jun'ichi Tsujii, Sophia Ananiadou:
Overview of the Cancer Genetics and Pathway Curation tasks of BioNLP Shared Task 2013. BMC Bioinform. 16(S10): S2 (2015) - [j69]Makoto Miwa, Sophia Ananiadou:
Adaptable, high recall, event extraction system with minimal configuration. BMC Bioinform. 16(S10): S7 (2015) - [j68]Riza Theresa Batista-Navarro, Rafal Rak, Sophia Ananiadou:
Optimising chemical named entity recognition with pre-processing analytics, knowledge-rich features and heuristics. J. Cheminformatics 7(S-1): S6 (2015) - [j67]Noha Alnazzawi, Paul Thompson, Riza Theresa Batista-Navarro, Sophia Ananiadou:
Using text mining techniques to extract phenotypic information from the PhenoCHF corpus. BMC Medical Informatics Decis. Mak. 15-S(S-2): S3 (2015) - [c113]Chrysoula Zerva, Sophia Ananiadou:
Event Extraction in pieces: Tackling the partial event identification problem on unseen corpora. BioNLP@IJCNLP 2015: 31-41 - [c112]Paul Thompson, John McNaught, Sophia Ananiadou:
Customised OCR correction for historical medical text. DigitalHERITAGE (1) 2015: 35-42 - [c111]Paul Thompson, Jacob Carter, John McNaught, Sophia Ananiadou:
Semantically enhanced search system for historical medical archives. Digital Heritage 2015: 387-390 - [c110]Dimitrios S. Kolovos, Nicholas Drivalos Matragkas, Ioannis Korkontzelos, Sophia Ananiadou, Richard F. Paige:
Assessing the Use of Eclipse MDE Technologies in Open-Source Software Projects. OSS4MDE@MoDELS 2015: 20-29 - [c109]Bruno Almeida, Sophia Ananiadou, Alessandra Bagnato, Alberto Berreteaga Barbero, Juri Di Rocco, Davide Di Ruscio, Dimitrios S. Kolovos, Ioannis Korkontzelos, Scott Hansen, Pedro Maló, Nikolaos Drivalos, Richard F. Paige, Jurgen J. Vinju:
OSSMETER: Automated Measurement and Analysis of Open Source Software. STAF Projects Showcase 2015: 36-43 - [p2]Claudiu Mihaila, Riza Theresa Batista-Navarro, Noha Alnazzawi, Georgios Kontonatsios, Ioannis Korkontzelos, Rafal Rak, Paul Thompson, Sophia Ananiadou:
Mining the Biomedical Literature. Healthcare Data Analytics 2015: 251-307 - [e10]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, Jun'ichi Tsujii:
Proceedings of the Workshop on Biomedical Natural Language Processing, BioNLP@IJCNLP 2015, Beijing, China, July 30, 2015. Association for Computational Linguistics 2015 [contents] - 2014
- [j66]Rafal Rak, Riza Theresa Batista-Navarro, Jacob Carter, Andrew Rowley, Sophia Ananiadou:
Processing biological literature with customizable Web services supporting interoperable formats. Database J. Biol. Databases Curation 2014 (2014) - [j65]Rafal Rak, Riza Theresa Batista-Navarro, Andrew Rowley, Jacob Carter, Sophia Ananiadou:
Text-mining-assisted biocuration workflows in Argo. Database J. Biol. Databases Curation 2014 (2014) - [j64]Sampo Pyysalo, Sophia Ananiadou:
Anatomical entity mention recognition at literature scale. Bioinform. 30(6): 868-875 (2014) - [j63]Pontus Stenetorp, Sampo Pyysalo, Sophia Ananiadou, Jun'ichi Tsujii:
Generalising semantic category disambiguation with large lexical resources for fun and profit. J. Biomed. Semant. 5: 26 (2014) - [j62]Tingting Mu, Makoto Miwa, Junichi Tsujii, Sophia Ananiadou:
Discovering robust Embeddings in (DIS)Similarity Space for High-Dimensional Linguistic Features. Comput. Intell. 30(2): 285-315 (2014) - [j61]Makoto Miwa, James Thomas, Alison O'Mara-Eves, Sophia Ananiadou:
Reducing systematic review workload through certainty-based screening. J. Biomed. Informatics 51: 242-253 (2014) - [c108]Sophia Ananiadou:
Keynote: Supporting evidence-based medicine using text mining. Louhi@EACL 2014: 1 - [c107]Noha Alnazzawi, Paul Thompson, Sophia Ananiadou:
Building a semantically annotated corpus for congestive heart and renal failure from clinical records and the literature. Louhi@EACL 2014: 69-74 - [c106]Makoto Miwa, Paul Thompson, Ioannis Korkontzelos, Sophia Ananiadou:
Comparable Study of Event Extraction in Newswire and Biomedical Domains. COLING 2014: 2270-2279 - [c105]Georgios Kontonatsios, Ioannis Korkontzelos, Jun'ichi Tsujii, Sophia Ananiadou:
Using a Random Forest Classifier to Compile Bilingual Dictionaries of Technical Terms from Comparable Corpora. EACL 2014: 111-116 - [c104]Georgios Kontonatsios, Ioannis Korkontzelos, Jun'ichi Tsujii, Sophia Ananiadou:
Combining String and Context Similarity for Bilingual Term Alignment from Comparable Corpora. EMNLP 2014: 1701-1712 - [c103]Ioannis Korkontzelos, Sophia Ananiadou:
Locating Requests among Open Source Software Communication Messages. LREC 2014: 1347-1354 - [c102]Georg Rehm, Hans Uszkoreit, Sophia Ananiadou, Núria Bel, Audroné Bieleviciené, Lars Borin, António Branco, Gerhard Budin, Nicoletta Calzolari, Walter Daelemans, Radovan Garabík, Marko Grobelnik, Carmen García-Mateo, Josef van Genabith, Jan Hajic, Inma Hernáez, John Judge, Svetla Koeva, Simon Krek, Cvetana Krstev, Krister Lindén, Bernardo Magnini, Joseph Mariani, John McNaught, Maite Melero, Monica Monachini, Asunción Moreno, Jan Odijk, Maciej Ogrodniczuk, Piotr Pezik, Stelios Piperidis, Adam Przepiórkowski, Eiríkur Rögnvaldsson, Michael Rosner, Bolette S. Pedersen, Inguna Skadina, Koenraad De Smedt, Marko Tadic, Paul Thompson, Dan Tufis, Tamás Váradi, Andrejs Vasiljevs, Kadri Vider, Jolanta Zabarskaite:
The Strategic Impact of META-NET on the Regional, National and International Level. LREC 2014: 1517-1524 - [c101]Claudiu Mihaila, Sophia Ananiadou:
The Meta-knowledge of Causality in Biomedical Scientific Discourse. LREC 2014: 1984-1991 - [c100]Rafal Rak, Jacob Carter, Andrew Rowley, Riza Theresa Batista-Navarro, Sophia Ananiadou:
Interoperability and Customisation of Annotation Schemata in Argo. LREC 2014: 3837-3842 - [c99]Georgios Kontonatsios, Claudiu Mihaila, Ioannis Korkontzelos, Paul Thompson, Sophia Ananiadou:
A Hybrid Approach to Compiling Bilingual Dictionaries of Medical Terms from Parallel Corpora. SLSP 2014: 57-69 - [e9]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, Jun'ichi Tsujii:
Proceedings of BioNLP, Baltimore, Maryland, USA, BioNLP@ACL 2014, June 27-28, 2014. Association for Computational Linguistics 2014, ISBN 978-1-941643-18-1 [contents] - 2013
- [j60]Makoto Miwa, Tomoko Ohta, Rafal Rak, Andrew Rowley, Douglas B. Kell, Sampo Pyysalo, Sophia Ananiadou:
A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text. Bioinform. 29(13): 44-52 (2013) - [j59]Georgios Kontonatsios, Ioannis Korkontzelos, BalaKrishna Kolluru, Paul Thompson, Sophia Ananiadou:
Deploying and sharing U-Compare workflows as web services. J. Biomed. Semant. 4: 7 (2013) - [j58]Claudiu Mihaila, Tomoko Ohta, Sampo Pyysalo, Sophia Ananiadou:
BioCause: Annotating and analysing causality in the biomedical domain. BMC Bioinform. 14: 2 (2013) - [j57]Raheel Nawaz, Paul Thompson, Sophia Ananiadou:
Negated bio-events: analysis and identification. BMC Bioinform. 14: 14 (2013) - [j56]Makoto Miwa, Sampo Pyysalo, Tomoko Ohta, Sophia Ananiadou:
Wide coverage biomedical event extraction using multiple partially overlapping corpora. BMC Bioinform. 14: 175 (2013) - [j55]Raheel Nawaz, Paul Thompson, Sophia Ananiadou:
Something Old, Something New: Identifying Knowledge Source in Bio-events. Int. J. Comput. Linguistics Appl. 4(1): 129-144 (2013) - [j54]Raheel Nawaz, Paul Thompson, Sophia Ananiadou:
Towards Event-based Discourse Analysis of Biomedical Text. Int. J. Comput. Linguistics Appl. 4(2): 101-120 (2013) - [j53]Claudiu Mihaila, Sophia Ananiadou:
Recognising Discourse Causality Triggers in the Biomedical Domain. J. Bioinform. Comput. Biol. 11(6) (2013) - [j52]Angelo C. Restificar, Ioannis Korkontzelos, Sophia Ananiadou:
A method for discovering and inferring appropriate eligibility criteria in clinical trial protocols without labeled data. BMC Medical Informatics Decis. Mak. 13(S-1): S6 (2013) - [j51]Sophia Ananiadou, Paul Thompson, Raheel Nawaz:
"Mining events from the literature for bioinformatics applications" by S. Ananiadou, P. Thompson, and R. Nawaz; with Martin Vesely as coordinator. SIGWEB Newsl. 2013(Autumn): 5:1-5:12 (2013) - [j50]Sophia Ananiadou, Nathalie Friburger, Sophie Rosset:
Préface. Trait. Autom. des Langues 54(2): 7-11 (2013) - [j49]Christopher C. Yang, Gondy Leroy, Sophia Ananiadou:
Smart Health and Wellbeing. ACM Trans. Manag. Inf. Syst. 4(4): 15:1-15:8 (2013) - [c98]Claudiu Mihaila, Sophia Ananiadou:
What causes a causal relation? Detecting Causal Triggers in Biomedical Scientific Discourse. ACL (Student Research Workshop) 2013: 38-45 - [c97]Georgios Kontonatsios, Paul Thompson, Riza Theresa Batista-Navarro, Claudiu Mihaila, Ioannis Korkontzelos, Sophia Ananiadou:
Extending an interoperable platform to facilitate the creation of multilingual and multimodal NLP applications. ACL (Conference System Demonstrations) 2013: 43-48 - [c96]Rafal Rak, Andrew Rowley, Jacob Carter, Sophia Ananiadou:
Development and Analysis of NLP Pipelines in Argo. ACL (Conference System Demonstrations) 2013: 115-120 - [c95]Georgios Kontonatsios, Ioannis Korkontzelos, Sophia Ananiadou, Jun'ichi Tsujii:
Using a Random Forest Classifier to recognise translations of biomedical terms across languages. BUCC@ACL 2013: 95-104 - [c94]Claudiu Mihaila, Georgios Kontonatsios, Riza Theresa Batista-Navarro, Paul Thompson, Ioannis Korkontzelos, Sophia Ananiadou:
Towards a Better Understanding of Discourse: Integrating Multiple Discourse Annotation Perspectives Using UIMA. LAW@ACL 2013: 79-88 - [c93]Rafal Rak, Sophia Ananiadou:
Making UIMA Truly Interoperable with SPARQL. LAW@ACL 2013: 89-97 - [c92]Claudiu Mihaila, Sophia Ananiadou:
A hybrid approach to recognising discourse causality in the biomedical domain. BIBM 2013: 361-366 - [c91]Sampo Pyysalo, Tomoko Ohta, Sophia Ananiadou:
Overview of the Cancer Genetics (CG) task of BioNLP Shared Task 2013. BioNLP@ACL (Shared Task) 2013: 58-66 - [c90]Tomoko Ohta, Sampo Pyysalo, Rafal Rak, Andrew Rowley, Hong-Woo Chun, Sung-Jae Jung, Sung-Pil Choi, Sophia Ananiadou, Jun'ichi Tsujii:
Overview of the Pathway Curation (PC) task of BioNLP Shared Task 2013. BioNLP@ACL (Shared Task) 2013: 67-75 - [c89]Makoto Miwa, Sophia Ananiadou:
NaCTeM EventMine for BioNLP 2013 CG and PC tasks. BioNLP@ACL (Shared Task) 2013: 94-98 - [c88]Sophia Ananiadou, Paul Thompson, Raheel Nawaz:
Enhancing Search: Events and Their Discourse Context. CICLing (2) 2013: 318-334 - [c87]Riza Theresa Batista-Navarro, Georgios Kontonatsios, Claudiu Mihaila, Paul Thompson, Rafal Rak, Raheel Nawaz, Ioannis Korkontzelos, Sophia Ananiadou:
Facilitating the Analysis of Discourse Phenomena in an Interoperable NLP Platform. CICLing (1) 2013: 559-571 - [c86]Paul Thompson, Raheel Nawaz, Ioannis Korkontzelos, William J. Black, John McNaught, Sophia Ananiadou:
News search using discourse analytics. Digital Heritage (1) 2013: 597-604 - [c85]Dimitrios Piliouras, Ioannis Korkontzelos, Andrew W. Dowsey, Sophia Ananiadou:
Dealing with Data Sparsity in Drug Named Entity Recognition. ICHI 2013: 14-21 - [e8]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, John Pestian, Junichi Tsujii:
Proceedings of the 2013 Workshop on Biomedical Natural Language Processing, BioNLP@ACL 2013, Sofia, Bulgaria, August 8, 2013. Association for Computational Linguistics 2013, ISBN 978-1-937284-54-1 [contents] - 2012
- [j48]Rafal Rak, Andrew Rowley, William J. Black, Sophia Ananiadou:
Argo: an integrative, interactive, text mining-based workbench supporting curation. Database J. Biol. Databases Curation 2012 (2012) - [j47]Makoto Miwa, Paul Thompson, Sophia Ananiadou:
Boosting automatic event extraction from the literature using domain adaptation and coreference resolution. Bioinform. 28(13): 1759-1765 (2012) - [j46]Sampo Pyysalo, Tomoko Ohta, Makoto Miwa, Han-Cheol Cho, Junichi Tsujii, Sophia Ananiadou:
Event extraction across multiple levels of biological organization. Bioinform. 28(18): 575-581 (2012) - [j45]Makoto Miwa, Paul Thompson, John McNaught, Douglas B. Kell, Sophia Ananiadou:
Extracting semantically enriched events from biomedical literature. BMC Bioinform. 13: 108 (2012) - [j44]Sampo Pyysalo, Tomoko Ohta, Rafal Rak, Daniel E. Sullivan, Chunhong Mao, Chunxia Wang, Bruno W. S. Sobral, Jun'ichi Tsujii, Sophia Ananiadou:
Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011. BMC Bioinform. 13(S-11): S2 (2012) - [j43]Ioannis Korkontzelos, Tingting Mu, Sophia Ananiadou:
ASCOT: a text mining-based web-service for efficient search and assisted creation of clinical trials. BMC Medical Informatics Decis. Mak. 12(S-1): S3 (2012) - [j42]Tingting Mu, John Yannis Goulermas, Jun'ichi Tsujii, Sophia Ananiadou:
Proximity-Based Frameworks for Generating Embeddings from Multi-Output Data. IEEE Trans. Pattern Anal. Mach. Intell. 34(11): 2216-2232 (2012) - [c84]Pontus Stenetorp, Sampo Pyysalo, Tomoko Ohta, Sophia Ananiadou, Jun'ichi Tsujii:
Bridging the Gap Between Scope-based and Event-based Negation/Speculation Annotations: A Bridge Not Too Far. ExProM@ACL 2012: 47-56 - [c83]Rafal Rak, BalaKrishna Kolluru, Sophia Ananiadou:
Building Trainable Taggers in a Web-based, UIMA-Supported NLP Workbench. ACL (System Demonstrations) 2012: 121-126 - [c82]Jari Björne, Sofie Van Landeghem, Sampo Pyysalo, Tomoko Ohta, Filip Ginter, Yves Van de Peer, Sophia Ananiadou, Tapio Salakoski:
PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations. BioNLP@HLT-NAACL 2012: 82-90 - [c81]Sampo Pyysalo, Pontus Stenetorp, Tomoko Ohta, Jin-Dong Kim, Sophia Ananiadou:
New Resources and Perspectives for Biomedical Event Extraction. BioNLP@HLT-NAACL 2012: 100-108 - [c80]Angelo C. Restificar, Sophia Ananiadou:
Inferring appropriate eligibility criteria in clinical trial protocols without labeled data. DTMBIO@CIKM 2012: 21-28 - [c79]Min Song, Doheon Lee, Hua Xu, Sophia Ananiadou:
DTMBIO 2012: international workshop on data and text mining in biomedical informatics. CIKM 2012: 2766-2767 - [c78]Pontus Stenetorp, Sampo Pyysalo, Goran Topic, Tomoko Ohta, Sophia Ananiadou, Jun'ichi Tsujii:
brat: a Web-based Tool for NLP-Assisted Text Annotation. EACL 2012: 102-107 - [c77]Sophia Ananiadou:
Extracting Semantically Enriched Events from the Literature. KDIR 2012 - [c76]Sophia Ananiadou:
Biomedical text mining for semantic search and knowledge discovery. IHI 2012: 1-2 - [c75]Ioannis Korkontzelos, Sophia Ananiadou:
ASCOT: assisting search and creation of clinical trials. IHI 2012: 855-858 - [c74]Anita de Waard, Sophia Ananiadou, Maryann E. Martone, Ágnes Sándor, Hagit Shatkay:
Detecting and using document structure in scientific text. IHI 2012: 883-884 - [c73]Xinkai Wang, Paul Thompson, Jun'ichi Tsujii, Sophia Ananiadou:
Biomedical Chinese-English CLIR Using an Extended CMeSH Resource to Expand Queries. LREC 2012: 1148-1155 - [c72]William J. Black, Rob Procter, Steven Gray, Sophia Ananiadou:
A data and analysis resource for an experiment in text mining a collection of micro-blogs on a political topic. LREC 2012: 2083-2088 - [c71]Rafal Rak, Andrew Rowley, Sophia Ananiadou:
Collaborative Development and Evaluation of Text-processing Workflows in a UIMA-supported Web-based Workbench. LREC 2012: 2971-2976 - [c70]Raheel Nawaz, Paul Thompson, Sophia Ananiadou:
Identification of Manner in Bio-Events. LREC 2012: 3505-3510 - [c69]Georgios Kontonatsios, Ioannis Korkontzelos, Sophia Ananiadou:
Developing Multilingual Text Mining Workflows in UIMA and U-Compare. NLDB 2012: 82-93 - [e7]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, Bonnie L. Webber, Jun'ichi Tsujii, John Pestian:
Proceedings of the 2012 Workshop on Biomedical Natural Language Processing, BioNLP@HLT-NAACL Montrèal, Canada, June 8, 2012. Association for Computational Linguistics 2012, ISBN 978-1-937284-20-6 [contents] - [e6]Doheon Kim, Sophia Ananiadou, Min Song, Hua Xu:
Proceedings of the ACM sixth international workshop on Data and text mining in biomedical informatics, DTMBIO@CIKM 2012, Maui, Hawaii, USA, October 29, 2012. ACM 2012, ISBN 978-1-4503-1716-0 [contents] - 2011
- [j41]Simon Kocbek, Rune Sætre, Gregor Stiglic, Jin-Dong Kim, Igor Pernek, Yoshimasa Tsuruoka, Peter Kokol, Sophia Ananiadou, Jun'ichi Tsujii:
AGRA: analysis of gene ranking algorithms. Bioinform. 27(8): 1185-1186 (2011) - [j40]Yoshimasa Tsuruoka, Makoto Miwa, Kaisei Hamamoto, Jun'ichi Tsujii, Sophia Ananiadou:
Discovering and visualizing indirect associations between biomedical concepts. Bioinform. 27(13): 111-119 (2011) - [j39]Xinglong Wang, Iain McKendrick, Ian Barrett, Ian Dix, Tim French, Jun'ichi Tsujii, Sophia Ananiadou:
Automatic extraction of angiogenesis bioprocess from text. Bioinform. 27(19): 2730-2737 (2011) - [j38]Paul Thompson, Raheel Nawaz, John McNaught, Sophia Ananiadou:
Enriching a biomedical event corpus with meta-knowledge annotation. BMC Bioinform. 12: 393 (2011) - [j37]Paul Thompson, John McNaught, Simonetta Montemagni, Nicoletta Calzolari, Riccardo Del Gratta, Vivian Lee, Simone Marchi, Monica Monachini, Piotr Pezik, Valeria Quochi, C. J. Rupp, Yutaka Sasaki, Giulia Venturi, Dietrich Rebholz-Schuhmann, Sophia Ananiadou:
The BioLexicon: a large-scale terminological resource for biomedical text mining. BMC Bioinform. 12: 397 (2011) - [j36]Yoshinobu Kano, Jari Björne, Filip Ginter, Tapio Salakoski, Ekaterina Buyko, Udo Hahn, K. Bretonnel Cohen, Karin Verspoor, Christophe Roeder, Lawrence E. Hunter, Halil Kilicoglu, Sabine Bergler, Sofie Van Landeghem, Thomas Van Parys, Yves Van de Peer, Makoto Miwa, Sophia Ananiadou, Mariana L. Neves, Alberto D. Pascual-Montano, Arzucan Özgür, Dragomir R. Radev, Sebastian Riedel, Rune Sætre, Hong-Woo Chun, Jin-Dong Kim, Sampo Pyysalo, Tomoko Ohta, Jun'ichi Tsujii:
U-Compare bio-event meta-service: compatible BioNLP event extraction services. BMC Bioinform. 12: 481 (2011) - [j35]Xinglong Wang, Rafal Rak, Angelo C. Restificar, Chikashi Nobata, C. J. Rupp, Riza Theresa Batista-Navarro, Raheel Nawaz, Sophia Ananiadou:
Detecting experimental techniques and selecting relevant documents for protein-protein interactions from biomedical literature. BMC Bioinform. 12(S-8): S11 (2011) - [j34]Yutaka Sasaki, Xinglong Wang, Sophia Ananiadou:
Extracting Secondary Bio-Event Arguments with Extraction Constraints. Comput. Intell. 27(4): 702-721 (2011) - [j33]Yoshinobu Kano, Makoto Miwa, K. Bretonnel Cohen, Lawrence Hunter, Sophia Ananiadou, Jun'ichi Tsujii:
U-Compare: A modular NLP workflow construction and evaluation system. IBM J. Res. Dev. 55(3): 11 (2011) - [j32]BalaKrishna Kolluru, Sirintra Nakjang, Robert P. Hirt, Anil Wipat, Sophia Ananiadou:
Automatic extraction of microorganisms and their habitats from free text using text mining workflows. J. Integr. Bioinform. 8(2) (2011) - [j31]Johanna R. McEntyre, Sophia Ananiadou, Stephen Andrews, William J. Black, Richard Boulderstone, Paula Buttery, David Chaplin, Sandeepreddy Chevuru, Norman Cobley, Lee-Ann Coleman, Paul Davey, Bharti Gupta, Lesley Haji-Gholam, Craig Hawkins, Alan Horne, Simon J. Hubbard, Jee-Hyub Kim, Ian Lewin, Vic Lyte, Ross MacIntyre, Sami Mansoor, Linda Mason, John McNaught, Elizabeth Newbold, Chikashi Nobata, Ernest Ong, Sharmila Pillai, Dietrich Rebholz-Schuhmann, Heather Rosie, Rob Rowbotham, C. J. Rupp, Peter Stoehr, Philip Vaughan:
UKPMC: a full text article resource for the life sciences. Nucleic Acids Res. 39(Database-Issue): 58-65 (2011) - [c68]Sampo Pyysalo, Tomoko Ohta, Rafal Rak, Daniel E. Sullivan, Chunhong Mao, Chunxia Wang, Bruno W. S. Sobral, Jun'ichi Tsujii, Sophia Ananiadou:
Overview of the Infectious Diseases (ID) task of BioNLP Shared Task 2011. BioNLP@ACL (Shared Task) 2011: 26-35 - [c67]Riza Theresa Batista-Navarro, Sophia Ananiadou:
Building a Coreference-Annotated Corpus from the Domain of Biochemistry. BioNLP@ACL 2011: 83-91 - [c66]Sophia Ananiadou, Doheon Lee, Shamkant B. Navathe, Min Song:
DTMBIO 2011: international workshop on data and textmining in biomedical informatics. CIKM 2011: 2617-2618 - [c65]Simon Kocbek, Rune Sætre, Gregor Stiglic, Jin-Dong Kim, Igor Pernek, Yoshimasa Tsuruoka, Peter Kokol, Sophia Ananiadou, Jun'ichi Tsujii:
Poster: Analysis of gene ranking algorithms with extraction of relevant biomedical concepts from PubMed publications. ICCABS 2011: 249 - [c64]Paul Thompson, Yoshinobu Kano, John McNaught, Steve Pettifer, Teresa K. Attwood, John A. Keane, Sophia Ananiadou:
Promoting Interoperability of Resources in META-SHARE. Workshop on Language Resources@IJCNLP 2011: 50-58 - [c63]Kalliopi Zervanou, Ioannis Korkontzelos, Antal van den Bosch, Sophia Ananiadou:
Enrichment and Structuring of Archival Description Metadata. LaTeCH@ACL 2011: 44-53 - [c62]Michael Rosner, Andrew Attard, Paul Thompson, Albert Gatt, Sophia Ananiadou:
Extending a Tool Resource Framework with U-Compare. LTC 2011: 315-326 - [c61]Georgios Kontonatsios, Ioannis Korkontzelos, BalaKrishna Kolluru, Sophia Ananiadou:
Adding text mining workflows as web services to the BioCatalogue. SWAT4LS 2011: 50-57 - [e5]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, John Pestian, Jun'ichi Tsujii, Bonnie L. Webber:
Proceedings of the 2011 Workshop on Biomedical Natural Language Processing, BioNLP@ACL, Portland, Oregon, USA, June 23-24, 2011. Association for Computational Linguistics 2011, ISBN 978-1-932432-91-6 [contents] - 2010
- [j30]Xinglong Wang, Jun'ichi Tsujii, Sophia Ananiadou:
Disambiguating the species of biomedical named entities using natural language parsers. Bioinform. 26(5): 661-667 (2010) - [j29]Naoaki Okazaki, Sophia Ananiadou, Jun'ichi Tsujii:
Building a high-quality sense inventory for improved abbreviation disambiguation. Bioinform. 26(9): 1246-1253 (2010) - [j28]Brian Kemper, Takuya Matsuzaki, Yukiko Matsuoka, Yoshimasa Tsuruoka, Hiroaki Kitano, Sophia Ananiadou, Jun'ichi Tsujii:
PathText: a text mining integrator for biological pathway visualizations. Bioinform. 26(12): 374-381 (2010) - [j27]Yoshinobu Kano, Paul D. Dobson, Mio Nakanishi, Jun'ichi Tsujii, Sophia Ananiadou:
Text mining meets workflow: linking U-Compare with Taverna. Bioinform. 26(19): 2486-2487 (2010) - [j26]Yutaka Sasaki, John McNaught, Sophia Ananiadou:
The Value of an in-Domain Lexicon in genomics QA. J. Bioinform. Comput. Biol. 8(1): 147-161 (2010) - [c60]Raheel Nawaz, Paul Thompson, Sophia Ananiadou:
Evaluating a meta-knowledge annotation scheme for bio-events. NeSp-NLP@ACL 2010: 69-77 - [c59]Sampo Pyysalo, Tomoko Ohta, Han-Cheol Cho, Daniel E. Sullivan, Chunhong Mao, Bruno W. S. Sobral, Jun'ichi Tsujii, Sophia Ananiadou:
Towards Event Extraction from Full Texts on Infectious Diseases. BioNLP@ACL 2010: 132-140 - [c58]Tingting Mu, Xinglong Wang, Jun'ichi Tsujii, Sophia Ananiadou:
Imbalanced Classification Using Dictionary-based Prototypes and Hierarchical Decision Rules for Entity Sense Disambiguation. COLING (Posters) 2010: 851-859 - [c57]Tingting Mu, Sophia Ananiadou:
Proximity-based Graph Embeddings for Multi-label Classification. KDIR 2010: 74-84 - [c56]Sophia Ananiadou, John McNaught, James Thomas, Mark Rickinson, Sandy Oliver:
Evaluating a Text Mining Based Educational Search Portal. LREC 2010 - [c55]Yoshinobu Kano, Rubén Dorado, Luke McCrohon, Sophia Ananiadou, Jun'ichi Tsujii:
U-Compare: An Integrated Language Resource Evaluation Platform Including a Comprehensive UIMA Resource Library. LREC 2010 - [c54]Raheel Nawaz, Paul Thompson, John McNaught, Sophia Ananiadou:
Meta-Knowledge Annotation of Bio-Events. LREC 2010 - [e4]K. Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, John Pestian, Jun'ichi Tsujii, Bonnie L. Webber:
Proceedings of the 2010 Workshop on Biomedical Natural Language Processing, BioNLP@ACL 2010, Uppsala, Sweden, July 15, 2010. Association for Computational Linguistics 2010, ISBN 978-1-932432-73-2 [contents]
2000 – 2009
- 2009
- [j25]Yoshinobu Kano, William A. Baumgartner Jr., Luke McCrohon, Sophia Ananiadou, K. Bretonnel Cohen, Lawrence Hunter, Jun'ichi Tsujii:
U-Compare: share and compare text mining tools with UIMA. Bioinform. 25(15): 1997-1998 (2009) - [j24]Paul Thompson, Syed A. Iqbal, John McNaught, Sophia Ananiadou:
Construction of an annotated corpus to support biomedical information extraction. BMC Bioinform. 10: 349 (2009) - [j23]Yutaka Sasaki, Brian Rea, Sophia Ananiadou:
Clinical text classification under the Open and Closed Topic Assumptions. Int. J. Data Min. Bioinform. 3(3): 299-313 (2009) - [c53]Yoshimasa Tsuruoka, Jun'ichi Tsujii, Sophia Ananiadou:
Stochastic Gradient Descent Training for L1-regularized Log-linear Models with Cumulative Penalty. ACL/IJCNLP 2009: 477-485 - [c52]Alberto Barrón-Cedeño, Gerardo Sierra, Patrick Drouin, Sophia Ananiadou:
An Improved Automatic Term Recognition Method for Spanish. CICLing 2009: 125-136 - [c51]Giulia Venturi, Simonetta Montemagni, Simone Marchi, Yutaka Sasaki, Paul Thompson, John McNaught, Sophia Ananiadou:
Bootstrapping a Verb Lexicon for Biomedical Information Extraction. CICLing 2009: 137-148 - [c50]Yutaka Sasaki, Paul Thompson, John McNaught, Sophia Ananiadou:
Three BioNLP Tools Powered by a Biological Lexicon. EACL (Demos) 2009: 61-64 - [c49]Yoshimasa Tsuruoka, Jun'ichi Tsujii, Sophia Ananiadou:
Fast Full Parsing by Linear-Chain Conditional Random Fields. EACL 2009: 790-798 - [c48]Xinglong Wang, Jun'ichi Tsujii, Sophia Ananiadou:
Classifying Relations for Biomedical Named Entity Disambiguation. EMNLP 2009: 1513-1522 - [c47]Scott Piao, Brian Rea, John McNaught, Sophia Ananiadou:
Improving Full Text Search with Text Mining Tools. NLDB 2009: 301-302 - [c46]Davy Weissenbacher, Elisa Pieri, Sophia Ananiadou, Brian Rea, Farida Vis, Yuwei Lin, Rob Procter, Peter Halfpenny:
ASSIST : un moteur de recherche spécialisé pour l'analyse des cadres d'expériences. TALN (Demonstrations) 2009: 13-15 - [p1]Sophia Ananiadou:
Text Mining for Biomedicine. Information Retrieval in Biomedicine 2009: 1-9 - [e3]Kevin Bretonnel Cohen, Dina Demner-Fushman, Sophia Ananiadou, John Pestian, Jun'ichi Tsujii, Bonnie L. Webber:
Proceedings of the BioNLP Workshop, BioNLP@HLT-NAACL 2009, Boulder, Colorado, USA, June 4-5, 2009. Association for Computational Linguistics 2009, ISBN 978-1-932432-30-5 [contents] - 2008
- [j22]Yoshimasa Tsuruoka, Jun'ichi Tsujii, Sophia Ananiadou:
FACTA: a text search engine for finding associated biomedical concepts. Bioinform. 24(21): 2559-2560 (2008) - [j21]Dina Demner-Fushman, Sophia Ananiadou, K. Bretonnel Cohen, John Pestian, Jun'ichi Tsujii, Bonnie L. Webber:
Themes in biomedical natural language processing: BioNLP08. BMC Bioinform. 9(S-11) (2008) - [j20]Yutaka Sasaki, Yoshimasa Tsuruoka, John McNaught, Sophia Ananiadou:
How to make the most of NE dictionaries in statistical NER. BMC Bioinform. 9(S-11) (2008) - [j19]Yoshimasa Tsuruoka, Jun'ichi Tsujii, Sophia Ananiadou:
Accelerating the annotation of sparse named entities by dynamic sentence selection. BMC Bioinform. 9(S-11) (2008) - [j18]Yoshimasa Tsuruoka, John McNaught, Sophia Ananiadou:
Normalizing biomedical terms by minimizing ambiguity and variability. BMC Bioinform. 9(S-3) (2008) - [j17]Farid Meziane, Nikos Athanasakis, Sophia Ananiadou:
Generating Natural Language specifications from UML class diagrams. Requir. Eng. 13(1): 1-18 (2008) - [c45]Yoshimasa Tsuruoka, Jun'ichi Tsujii, Sophia Ananiadou:
Accelerating the Annotation of Sparse Named Entities by Dynamic Sentence Selection. BioNLP 2008: 30-37 - [c44]Yutaka Sasaki, Yoshimasa Tsuruoka, John McNaught, Sophia Ananiadou:
How to Make the Most of NE Dictionaries in Statistical NER. BioNLP 2008: 63-70 - [c43]Naoaki Okazaki, Sophia Ananiadou, Jun'ichi Tsujii:
A Discriminative Alignment Model for Abbreviation Recognition. COLING 2008: 657-664 - [c42]Yutaka Sasaki, Paul Thompson, Philip Cotter, John McNaught, Sophia Ananiadou:
Event Frame Extraction Based on a Gene Regulation Corpus. COLING 2008: 761-768 - [c41]Naoaki Okazaki, Yoshimasa Tsuruoka, Sophia Ananiadou, Jun'ichi Tsujii:
A Discriminative Candidate Generator for String Transformations. EMNLP 2008: 447-456 - [c40]Kenji Hirohata, Naoaki Okazaki, Sophia Ananiadou, Mitsuru Ishizuka:
Identifying Sections in Scientific Abstracts using Conditional Random Fields. IJCNLP 2008: 381-388 - [c39]Yoshinobu Kano, Ngan L. T. Nguyen, Rune Sætre, Kazuhiro Yoshida, Keiichiro Fukamachi, Yusuke Miyao, Yoshimasa Tsuruoka, Sophia Ananiadou, Jun'ichi Tsujii:
Towards Data and Goal Oriented Analysis: Tool Inter-operability and Combinatorial Comparison. IJCNLP 2008: 859-864 - [c38]Scott Piao, John McNaught, Sophia Ananiadou:
Clustering Related Terms with Definitions. LREC 2008 - [c37]Rune Sætre, Brian Kemper, Kanae Oda, Naoaki Okazaki, Yukiko Matsuoka, Norihiro Kikuchi, Hiroaki Kitano, Yoshimasa Tsuruoka, Sophia Ananiadou, Jun'ichi Tsujii:
Connecting Text Mining and Pathways using the PathText Resource. LREC 2008 - [c36]Paul Thompson, Philip Cotter, John McNaught, Sophia Ananiadou, Simonetta Montemagni, Andrea Trabucco, Giulia Venturi:
Building a Bio-Event Annotated Corpus for the Acquisition of Semantic Frames from Biomedical Corpora. LREC 2008 - [c35]Yoshinobu Kano, Ngan L. T. Nguyen, Rune Sætre, Kazuhiro Yoshida, Yusuke Miyao, Yoshimasa Tsuruoka, Yuichiroh Matsubayashi, Sophia Ananiadou, Jun'ichi Tsujii:
Filling the Gaps Between Tools and Users: A Tool Comparator, Using Protein-Protein Interactions as an Example. Pacific Symposium on Biocomputing 2008: 616-627 - [c34]Chikashi Nobata, Philip Cotter, Naoaki Okazaki, Brian Rea, Yutaka Sasaki, Yoshimasa Tsuruoka, Jun'ichi Tsujii, Sophia Ananiadou:
Kleio: a knowledge-enriched information retrieval system for biology. SIGIR 2008: 787-788 - [e2]Dina Demner-Fushman, Sophia Ananiadou, Kevin Bretonnel Cohen, John Pestian, Jun'ichi Tsujii, Bonnie L. Webber:
Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing, BioNLP 2008, Columbus, Ohio, USA, June 19, 2008. Association for Computational Linguistics 2008, ISBN 978-1-932432-11-4 [contents] - 2007
- [j16]Yoshimasa Tsuruoka, John McNaught, Jun'ichi Tsujii, Sophia Ananiadou:
Learning string similarity measures for gene/protein name dictionary look-up using logistic regression. Bioinform. 23(20): 2768-2774 (2007) - [c33]Sophia Ananiadou:
Text Mining Techniques for Building a Biolexicon. ALTA 2007: 1 - [c32]Udo Hahn, Ekaterina Buyko, Katrin Tomanek, Scott Piao, John McNaught, Yoshimasa Tsuruoka, Sophia Ananiadou:
An Annotation Type System for a Data-Driven NLP Pipeline. LAW@ACL 2007: 33-40 - [c31]Yutaka Sasaki, Brian Rea, Sophia Ananiadou:
Multi-topic Aspects in Clinical Text Classification. BIBM 2007: 62-70 - 2006
- [j15]Naoaki Okazaki, Sophia Ananiadou:
Building an abbreviation dictionary using a term recognition approach. Bioinform. 22(24): 3089-3095 (2006) - [j14]Sophia Ananiadou, Juliane Fluck:
Proceedings of the Second International Symposium for Semantic Mining in Biomedicine. BMC Bioinform. 7(S-3) (2006) - [j13]Goran Nenadic, Sophia Ananiadou:
Mining semantically related terms from biomedical literature. ACM Trans. Asian Lang. Inf. Process. 5(1): 22-43 (2006) - [j12]Hideki Mima, Sophia Ananiadou, Katsumori Matsushima:
Terminology-based knowledge mining for new knowledge discovery. ACM Trans. Asian Lang. Inf. Process. 5(1): 74-88 (2006) - [c30]Naoaki Okazaki, Sophia Ananiadou:
A Term Recognition Approach to Acronym Recognition. ACL 2006 - [c29]Naoaki Okazaki, Sophia Ananiadou:
Clustering acronyms in biomedical text for disambiguation. LREC 2006: 959-962 - [c28]Goran Nenadic, Naoaki Okazaki, Sophia Ananiadou:
Towards a terminological resource for biomedical text mining. LREC 2006: 1071-1076 - [e1]Sophia Ananiadou, Juliane Fluck:
Proceedings of the Second International Symposium on Semantic Mining in Biomedicine, Jena, Germany, April 9-12, 2006. CEUR Workshop Proceedings 177, CEUR-WS.org 2006 [contents] - 2005
- [j11]Irena Spasic, Sophia Ananiadou, John McNaught, Anand Kumar:
Text mining and ontologies in biomedicine: Making sense of raw text. Briefings Bioinform. 6(3): 239-251 (2005) - [j10]Irena Spasic, Sophia Ananiadou, Jun'ichi Tsujii:
MaSTerClass: a case-based reasoning system for the classification of biomedical terms. Bioinform. 21(11): 2748-2758 (2005) - [j9]Jun'ichi Tsujii, Sophia Ananiadou:
Thesaurus or Logical Ontology, Which One Do We Need for Text Mining? Lang. Resour. Evaluation 39(1): 77-90 (2005) - [c27]Yoshimasa Tsuruoka, Sophia Ananiadou, Jun'ichi Tsujii:
A Machine Learning Approach to Acronym Generation. LBLODMBS@IDMB 2005: 25-31 - [c26]Yoshimasa Tsuruoka, Yuka Tateishi, Jin-Dong Kim, Tomoko Ohta, John McNaught, Sophia Ananiadou, Jun'ichi Tsujii:
Developing a Robust Part-of-Speech Tagger for Biomedical Text. Panhellenic Conference on Informatics 2005: 382-392 - [c25]Irena Spasic, Sophia Ananiadou:
A Flexible Measure of Contextual Similarity for Biomedical Terms. Pacific Symposium on Biocomputing 2005 - 2004
- [j8]Sophia Ananiadou, Carol Friedman, Jun'ichi Tsujii:
Introduction: named entity recognition in biomedicine. J. Biomed. Informatics 37(6): 393-395 (2004) - [j7]Irena Spasic, Sophia Ananiadou:
Using automatically learnt verb selectional preferences for classification of biomedical terms. J. Biomed. Informatics 37(6): 483-497 (2004) - [c24]Goran Nenadic, Sophia Ananiadou, John McNaught:
Enhancing automatic term recognition through recognition of variation. COLING 2004 - [c23]Irena Spasic, Goran Nenadic, Sophia Ananiadou:
Learning to Classify Biomedical Terms Through Literature Mining and Genetic Algorithms.. IDEAL 2004: 345-351 - [c22]Sophia Ananiadou, Jong C. Park:
Introduction (Thematic Session: Text Mining in Biomedicine). IJCNLP 2004: 776-776 - [c21]Goran Nenadic, Irena Spasic, Sophia Ananiadou:
Mining Biomedical Abstracts: What's in a Term? IJCNLP 2004: 797-806 - 2003
- [j6]Goran Nenadic, Irena Spasic, Sophia Ananiadou:
Terminology-driven Mining of Biomedical Literature. Bioinform. 19(8): 938-943 (2003) - [c20]Irena Spasic, Goran Nenadic, Sophia Ananiadou:
Using Domain-Specific Verbs for Term Classification. BioNLP@ACL 2003: 17-24 - [c19]Goran Nenadic, Simon B. Rice, Irena Spasic, Sophia Ananiadou, Benjamin J. Stapley:
Selecting Text Features for Gene Name Classification: from Documents to Terms. BioNLP@ACL 2003: 121-128 - [c18]Kostas Manios, Goran Nenadic, Irena Spasic, Sophia Ananiadou:
An Integrated Term-Based Corpus Query System. EACL 2003: 243-250 - [c17]Goran Nenadic, Irena Spasic, Sophia Ananiadou:
Terminology-driven Mining of Biomedical Literature. SAC 2003: 83-87 - 2002
- [j5]Sophia Ananiadou:
Spotting and Discovering Terms through Natural Language Processing by Christian Jacquemin. Comput. Linguistics 28(2): 217-220 (2002) - [j4]Goran Nenadic, Hideki Mima, Irena Spasic, Sophia Ananiadou, Jun'ichi Tsujii:
Terminology-driven literature mining and knowledge acquisition in biomedicine. Int. J. Medical Informatics 67(1-3): 33-48 (2002) - [c16]Hideki Mima, Sophia Ananiadou, Goran Nenadic, Jun'ichi Tsujii:
A Methodology for Terminology-based Knowledge Acquisition and Integration. COLING 2002 - [c15]Irena Spasic, Goran Nenadic, Kostas Manios, Sophia Ananiadou:
Supervised Learning of Term Similarities. IDEAL 2002: 429-434 - [c14]Goran Nenadic, Irena Spasic, Sophia Ananiadou:
Automatic Acronym Acquisition and Term Variation Management within Domain-Specific Texts. LREC 2002 - [c13]Irena Spasic, Goran Nenadic, Sophia Ananiadou:
Tuning Context Features with Genetic Algorithms. LREC 2002 - [c12]Goran Nenadic, Irena Spasic, Sophia Ananiadou:
Term Clustering Using a Corpus-Based Similarity Measure. TSD 2002: 151-154 - 2001
- [c11]Hideki Mima, Sophia Ananiadou, Goran Nenadic:
The ATRACT Workbench: Automatic Term Recognition and Clustering for Terms. TSD 2001: 126-133 - 2000
- [j3]Katerina T. Frantzi, Sophia Ananiadou, Hideki Mima:
Automatic recognition of multi-word terms: the C-value/NC-value method. Int. J. Digit. Libr. 3(2): 115-130 (2000) - [c10]Diana Maynard, Sophia Ananiadou:
Identifying Terms by their Family and Friends. COLING 2000: 530-536 - [c9]Diana Maynard, Sophia Ananiadou:
Creating and Using Domain-specific Ontologies for Terminological Applications. LREC 2000
1990 – 1999
- 1999
- [c8]Katerina T. Frantzi, Sophia Ananiadou, Jun'ichi Tsujii:
Classifying Technical Terms. ELPUB 1999 - 1998
- [c7]Katerina T. Frantzi, Sophia Ananiadou, Jun'ichi Tsujii:
The C-value/NC-value Method of Automatic Recognition for Multi-Word Terms. ECDL 1998: 585-604 - [c6]Diana Maynard, Sophia Ananiadou:
Term sense disambiguation using a domain-specific thesaurus. LREC 1998: 681-686 - 1996
- [c5]Katerina T. Frantzi, Sophia Ananiadou:
Extracting Nested Collocations. COLING 1996: 41-46 - 1995
- [j2]Jutta Frense, Sophia Ananiadou:
Book review. Mach. Transl. 10(3): 259-267 (1995) - 1994
- [c4]Sophia Ananiadou:
A Methodology For Automatic Term Recognition. COLING 1994: 1034-1038 - 1992
- [c3]Satoshi Sekine, Jeremy J. Carroll, Sophia Ananiadou, Jun'ichi Tsujii:
Automatic Learning for Semantic Collocation. ANLP 1992: 104-110 - [c2]Satoshi Sekine, Sophia Ananiadou, Jeremy J. Carroll, Jun'ichi Tsujii:
Linguistic Knowledge Generator. COLING 1992: 560-566 - [c1]Patrick Olivier, Sophia Ananiadou, Toshiyuki Maeda, Jun'ichi Tsujii:
Visualisation: mediating the interchange of information from the verbal to the visual domain. ISI 1992: 324-337 - 1990
- [j1]Sophia Ananiadou:
On the definition of word. Mach. Transl. 4(4): 313-317 (1990)
Coauthor Index
Riza Theresa Batista-Navarro
aka: Riza Batista-Navarro
aka: Riza Batista-Navarro
[j120] [c181] [i44] [j114] [i19] [c158] [c146] [i10] [c140] [j89] [j88] [j82] [c124] [j74] [c120] [c118] [e11] [j67] [c112] [c111] [p2] [c107] [c106] [c102] [c99] [j59] [j57] [j55] [j54] [j51] [c97] [c94] [c88] [c87] [c86] [j47] [j45] [c73] [c70] [j38] [j37] [c64] [c62] [c60] [c54] [j24] [c51] [c50] [c42] [c36]
Jun'ichi Tsujii
aka: Junichi Tsujii
aka: Junichi Tsujii
[e20] [e18] [e17] [e16] [j95] [j92] [e15] [j89] [c131] [e14] [c125] [e13] [e12] [j71] [j70] [e10] [j63] [j62] [c105] [c104] [e9] [c95] [c90] [e8] [j46] [j44] [j42] [c84] [c78] [c73] [e7] [j41] [j40] [j39] [j36] [j33] [c68] [c65] [e5] [j30] [j29] [j28] [j27] [c59] [c58] [c55] [e4] [j25] [c53] [c49] [c48] [e3] [j22] [j21] [j19] [c45] [c43] [c41] [c39] [c37] [c35] [c34] [e2] [j16] [j10] [j9] [c27] [c26] [j8] [j4] [c16] [c8] [c7] [c3] [c2] [c1]
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