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<h3>Home</h3>
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<h4 class="nomargin left">Join us!</h4>
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We're always interested in possible postdocs & students. If interested, please email me for more information.<br><br>
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In 2025, we're organizing the Text Mining COSI at <a href="https://www.iscb.org/ismbeccb2025/home">ISMB</a> & Workshop on Generative AI and LLMs at <a href="https://psb.stanford.edu/workshop/">PSB</a>. Come and join us for these scientific events!<br><br>
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Our 2024 JAMIA special issue on LLMs in Biomedicine is now out. <a href="https://academic.oup.com/jamia/issue/31/9">See here</a>
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<h4 class="nomargin left">Selected publications</h4>
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<div class="">
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1. <a href="https://www.nature.com/articles/s41467-024-53081-z">Matching Patients to Clinical Trials with LLMs</a>, Editors' Highlights at Nat Comm, 2024. <br>
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2. <a href="https://www.nature.com/articles/s41588-023-01414-x.">Tracking genetic variants in biomedical literature using LitVar 2.0</a>, Nat Genet, 2023.<br>
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3. <a href="https://www.nature.com/articles/s42256-021-00427-7">Predicting myocardial infarction through retinal scans</a>, Nature Mach Intell 2022. <br>
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4. <a href="https://www.nature.com/articles/d41586-020-00694-1">LitCovid: Keep up with the latest coronavirus research</a>, Nature 2020.<br>
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5. <a href="https://www.nature.com/articles/nbt.4267">How user intelligence is improving PubMed</a>, Nature Biotechnology 2018.<br>
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<h4 class="nomargin left">Recent NLP/AI tools</h4>
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<div class="">
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1. <a href="https://www.ncbi.nlm.nih.gov/research/trialgpt/">TrialGPT</a>: LLM for patient-to-trial matching. Featured in <a href="https://www.nih.gov/news-events/news-releases/nih-developed-ai-algorithm-matches-potential-volunteers-clinical-trials">NIH News</a> & <a href="https://directorsblog.nih.gov/2024/12/19/chatgpt-like-ai-tool-promises-to-speed-treatment-advances-and-free-doctors-time-by-matching-patients-with-clinical-trials/">NIH Director's Blog</a><br>
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2. <a href="https://github.com/ncbi/MedCPT">MedCPT</a>: foundation models for embedding bio-texts. See details in <a href="https://academic.oup.com/bioinformatics/article/39/11/btad651/7335842">Bioinformatics</a>.<br>
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3. <a href="https://github.com/ncbi-nlp/DeepSeeNet">DeepSeeNet</a>, automated AMD diagnosis & prognosis. See details in <a href="https://pmc.ncbi.nlm.nih.gov/articles/PMC6435402/">Ophthalmology</a>.
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1. <a href="https://www.ncbi.nlm.nih.gov/research/pubtator"/> PubTator</a>: Automated concept annotation for full-text articles. NAR 2013, 2019, 2024 <br>
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2. <a href="https://www.teamtat.org">TeamTat</a>: a collaborative text/corpus annotation tool. NAR 2020. <br>
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3. <a href="https://www.ncbi.nlm.nih.gov/research/litsuggest/">LitSuggest</a>: a system for literature recommendation and curation. NAR 2021. <br>
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4. <a href="https://www.ncbi.nlm.nih.gov/research/litsense/">LitSense</a>: Making sense of biomedical literature at sentence level. NAR 2019. <br>
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5. <a href="https://www.ncbi.nlm.nih.gov/research/litvar">LitVar</a>: a semantic literature search engine for genomic variants. NAR 2018. <br>
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<h4 class="nomargin left">ChestX-ray14 Data Release</h4>
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ChestX-ray14, one of the largest chest x-ray datasets, is now publicly available. Check out <a href="http://openaccess.thecvf.com/content_cvpr_2017/papers/Wang_ChestX-ray8_Hospital-Scale_Chest_CVPR_2017_paper.pdf">our CVPR paper</a> and <a href="https://www.nih.gov/news-events/news-releases/nih-clinical-center-provides-one-largest-publicly-available-chest-x-ray-datasets-scientific-community">the recent NIH press release</a>. This work received 2017 NIH Clinical Center Director's Award.
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