医疗文本数据集；医疗问答数据集；各种开源医疗数据集

Existing Medical QA & VQA Datasets

Multimodal Question Answering (QA) in the Medical Domain: A summary of Existing Datasets and Systems

• I prepared this summary for my CMU/LTI talk on multimodal QA. My slides are available at https://www.slideshare.net/benabacha/multimodal-question-answering-in-the-medical-domain-cmulti-2020

• This list is not exhaustive. You can email me links and references of relevant medical QA datasets and systems and I'll update the list asap. Also, several challenge-related datasets are not publicly available anymore. You can contact the organizers to have the data.

*** Two Main Tasks: Medical Question Answering (QA) & Visual Question Answering (VQA) ***

I) Medical QA Datasets:

1. Corpus for Evidence Based Medicine Summarization (Mollá, 2010): https://sourceforge.net/projects/ebmsumcorpus
2. CLEF QA4MRE Alzheimer’s task (Peñas et al, 2012).
3. BioASK datasets (2012-2020): Challenge Overview | bioasq.org
4. TREC LiveQA-Med (Ben Abacha et al, 2017): https://github.com/abachaa/LiveQA_MedicalTask_TREC2017
5. MEDIQA-2019 datasets on NLI, RQE, and QA (Ben Abacha et al., 2019): https://github.com/abachaa/MEDIQA2019
6. MEDIQA-AnS dataset of question-driven summaries of answers (Savery et al., 2020): https://osf.io/fyg46/ Paper: Question-driven summarization of answers to consumer health questions | Scientific Data
7. MedQuaD Collection of 47k QA pairs (Ben Abacha and Demner-Fushman, 2019): GitHub - abachaa/MedQuAD: Medical Question Answering Dataset of 47,457 QA pairs created from 12 NIH websites
8. Medication QA Collection (Ben Abacha et al., 2019): https://github.com/abachaa/Medication_QA_MedInfo2019
9. Consumer Health Question Summarization (Ben Abacha and Demner-Fushman, 2019): https://github.com/abachaa/MeQSum
10. emrQA: QA on Electronic Medical Records (Pampari et al., 2018). Scripts to generate emrQA from i2b2 data: https://github.com/panushri25/emrQA
11. EPIC-QA dataset on COVID-19 (Goodwin et al., 2020): Epidemic QA at TAC 2020
12. BiQA Corpus (Lamurias et al., 2020): https://github.com/lasigeBioTM/BiQA Paper:Generating Biomedical Question Answering Corpora From Q&A Forums | IEEE Journals & Magazine | IEEE Xplore
13. HealthQA Dataset (Zhu et al., 2019): https://github.com/mingzhu0527/HAR Paper: https://dmkd.cs.vt.edu/papers/WWW19.pdf
14. MASH-QA Dataset on Multiple Answer Spans Healthcare Question Answering, with 35k QA pairs (Zhu et al., 2020): https://github.com/mingzhu0527/MASHQA Paper: https://www.aclweb.org/anthology/2020.findings-emnlp.342.pdf
15. MedMCQA: A Large-scale Multi-Subject Multi-Choice Dataset for Medical domain Question Answering. (Pal et al., CHIL, PMLR 2022): GitHub - medmcqa/medmcqa: A large-scale (194k), Multiple-Choice Question Answering (MCQA) dataset designed to address realworld medical entrance exam questions. Paper: MedMCQA: A Large-scale Multi-Subject Multi-Choice Dataset for Medical domain Question Answering

II) Medical VQA Datasets (Radiology):

1. VQA-RAD (Lau et al. 2018): https://osf.io/89kps
2. VQA-Med 2018 (Hasan et al. 2018): AIcrowd | ImageCLEF 2018 VQA-Med | Challenges
3. VQA-Med 2019 (Ben Abacha et al. 2019): https://github.com/abachaa/VQA-Med-2019
4. VQA-Med 2020 (Ben Abacha et al. 2020): https://github.com/abachaa/VQA-Med-2020

III) Online QA Systems:

-- I searched and tested several systems (e.g. AskHERMES, MiPACQ, SimQ). This list includes only the systems that are still maintained.

1. CHiQA (Consumer Health Question Answering System): chiqa.nlm.nih.gov
2. Neural Covidex: covidex.ai

IV) Medical Datasets Relevant to Question Answering:

1. i2b2 shared tasks (2006-2016): www.i2b2.org/NLP
2. n2c2 NLP clinical challenges (2018-2019): https://n2c2.dbmi.hms.harvard.edu https://dbmi.hms.harvard.edu/programs/national-nlp-clinical-challenges-n2c2
3. TREC Medical Records Track (2012-2013).
4. TREC Clinical Decision Support Track (2014-2016): http://www.trec-cds.org
5. TREC Precision Medicine Track (2017-2019): http://www.trec-cds.org
6. CLEF eHealth (2013-2020): https://clefehealth.imag.fr
7. COVID dataset (CORD-19): https://www.kaggle.com/allen-institute-for-ai/CORD-19-research-challenge

V) Medical Datasets Relevant to VQA:

1. ImageCLEF Medical Automatic Image Annotation (2008-2009): Image 2008: Medical Automatic Image Annotation Task | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF and ImageCLEF 2009 lung nodule detection and medical annotation task | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
2. ImageCLEF Medical User-oriented Image Retrieval Task (2011): Practical showcase of medical image retrieval systems | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
3. ImageCLEF Medical Retrieval Task (2008-2012): Medical Image Classification and Retrieval 2012 | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
4. ImageCLEF AMIA: Medical task (2013): AMIA: Medical task | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
5. ImageCLEFmed: Medical classification (2015): ImageCLEFmed: Medical classification | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
6. ImageCLEF Medical Clustering (2015): Medical Clustering | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
7. ImageCLEFmed (2016): ImageCLEFmed: The Medical Task 2016 | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
8. ImageCLEFcaption (2017-2020): ImageCLEFcaption | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
9. ImageCLEFmedical tasks (2019-2020): ImageCLEFmedical | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF and ImageCLEFmedical | ImageCLEF / LifeCLEF - Multimedia Retrieval in CLEF
10. MIMIC-CXR Database (2019): MIMIC-CXR Database v2.0.0